gnu: Simplify package inputs.

This commit was obtained by running:

  ./pre-inst-env guix style

without any additional argument.

1 files changed, 1393 insertions, 1725 deletions

diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index aad13317b8..8c3be14e65 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -265,21 +265,21 @@ structure of the predicted RNA.")
                  `("PATH" ":" prefix (,path))
                  `("GUIX_PYTHONPATH" ":" prefix (,pythonpath)))))))))
     (native-inputs
-     `(("autoconf" ,autoconf)
-       ("automake" ,automake)
-       ("libtool" ,libtool)
-       ("zlib" ,zlib)
-       ("python-nose" ,python2-nose)
-       ("python-pysam" ,python2-pysam)))
-    (inputs
-     `(("htslib" ,htslib-1.3) ; At least one test fails on htslib-1.4+.
-       ("samtools" ,samtools)
-       ("bwa" ,bwa)
-       ("grep" ,grep)
-       ("sed" ,sed)
-       ("coreutils" ,coreutils)))
+     (list autoconf
+           automake
+           libtool
+           zlib
+           python2-nose
+           python2-pysam))
+    (inputs
+     (list htslib-1.3 ; At least one test fails on htslib-1.4+.
+           samtools
+           bwa
+           grep
+           sed
+           coreutils))
     (propagated-inputs
-     `(("python-numpy" ,python2-numpy)))
+     (list python2-numpy))
     (home-page "https://ecogenomics.github.io/BamM/")
     (synopsis "Metagenomics-focused BAM file manipulator")
     (description
@@ -314,7 +314,7 @@ instance, it implements several methods to assess contig-wise read coverage.")
                      "-Wl,-rpath="
                      (assoc-ref outputs "out") "/lib/bamtools"))
             #t)))))
-    (inputs `(("zlib" ,zlib)))
+    (inputs (list zlib))
     (home-page "https://github.com/pezmaster31/bamtools")
     (synopsis "C++ API and command-line toolkit for working with BAM data")
     (description
@@ -350,7 +350,7 @@ BAM files.")
              (copy-recursively (assoc-ref inputs "libstatgen")
                                "../libStatGen"))))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (native-inputs
      `(("libstatgen"
         ,(origin
@@ -399,11 +399,9 @@ single executable called @code{bam}.")
                (("/bin/bash") (which "bash")))
              #t)))))
     (native-inputs
-     `(("htslib" ,htslib)
-       ("perl" ,perl)))
+     (list htslib perl))
     (inputs
-     `(("gsl" ,gsl)
-       ("zlib" ,zlib)))
+     (list gsl zlib))
     (home-page "https://samtools.github.io/bcftools/")
     (synopsis "Utilities for variant calling and manipulating VCFs and BCFs")
     (description
@@ -432,8 +430,7 @@ transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.")
                           #t))))
     (build-system gnu-build-system)
     (native-inputs
-     `(("htslib" ,htslib-1.10)
-       ("perl" ,perl)))))
+     (list htslib-1.10 perl))))
 
 (define-public bedops
   (package
@@ -518,8 +515,7 @@ computational cluster.")
     (native-inputs
      `(("python" ,python-wrapper)))
     (inputs
-     `(("samtools" ,samtools)
-       ("zlib" ,zlib)))
+     (list samtools zlib))
     (home-page "https://github.com/arq5x/bedtools2")
     (synopsis "Tools for genome analysis and arithmetic")
     (description
@@ -567,8 +563,7 @@ BED, GFF/GTF, VCF.")
     (native-inputs
      `(("python" ,python-wrapper)))
     (inputs
-     `(("samtools" ,samtools)
-       ("zlib" ,zlib)))))
+     (list samtools zlib))))
 
 (define-public pbcopper
   ;; This is the latest commit at the time of this writing.
@@ -595,10 +590,9 @@ BED, GFF/GTF, VCF.")
                (substitute* "meson.build"
                  (("-msse4.1") "")))))))
       (inputs
-       `(("boost" ,boost)))
+       (list boost))
       (native-inputs
-       `(("googletest" ,googletest)
-         ("pkg-config" ,pkg-config)))
+       (list googletest pkg-config))
       (home-page "https://github.com/PacificBiosciences/pbcopper")
       (synopsis "Data structures, algorithms, and utilities for PacBio C++ applications")
       (description
@@ -639,12 +633,9 @@ and utilities for PacBio C++ applications.")
                 (string-append "'" (which "sh") "'"))))))))
     ;; These libraries are listed as "Required" in the pkg-config file.
     (propagated-inputs
-     `(("htslib" ,htslib)
-       ("pbcopper" ,pbcopper)
-       ("zlib" ,zlib)))
+     (list htslib pbcopper zlib))
     (inputs
-     `(("boost" ,boost)
-       ("samtools" ,samtools)))
+     (list boost samtools))
     (native-inputs
      `(("googletest" ,googletest)
        ("pkg-config" ,pkg-config)
@@ -676,10 +667,9 @@ Non-PacBio BAMs will cause exceptions to be thrown.")
                   "1mlmq0v96irbz71bgw5zcc43g1x32zwnxx21a5p1f1ch4cikw1yd"))))
       (build-system gnu-build-system)
       (native-inputs
-       `(("autoconf" ,autoconf)
-         ("automake" ,automake)))
+       (list autoconf automake))
       (inputs
-       `(("zlib" ,zlib)))
+       (list zlib))
       (home-page "https://github.com/nh13/pbgzip")
       (synopsis "Parallel Block GZIP")
       (description "This package implements parallel block gzip.  For many
@@ -741,14 +731,9 @@ libblasr_gtest_dep = cpp.find_library('gtest_main', dirs : '~a')\n"
        #:tests? #f
        #:configure-flags '("-Dtests=false")))
     (inputs
-     `(("boost" ,boost)
-       ("hdf5" ,hdf5)
-       ("htslib" ,htslib)
-       ("pbbam" ,pbbam)
-       ("zlib" ,zlib)))
+     (list boost hdf5 htslib pbbam zlib))
     (native-inputs
-     `(("googletest" ,googletest)
-       ("pkg-config" ,pkg-config)))
+     (list googletest pkg-config))
     (home-page "https://github.com/PacificBiosciences/blasr_libcpp")
     (synopsis "Library for analyzing PacBio genomic sequences")
     (description
@@ -788,13 +773,9 @@ cpp.find_library('hdf5_cpp', dirs : '~a'), "
        #:tests? #f
        #:configure-flags '("-Dtests=false")))
     (inputs
-     `(("boost" ,boost)
-       ("blasr-libcpp" ,blasr-libcpp)
-       ("hdf5" ,hdf5)
-       ("pbbam" ,pbbam)
-       ("zlib" ,zlib)))
+     (list boost blasr-libcpp hdf5 pbbam zlib))
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     (list pkg-config))
     (home-page "https://github.com/PacificBiosciences/blasr")
     (synopsis "PacBio long read aligner")
     (description
@@ -830,14 +811,14 @@ cpp.find_library('hdf5_cpp', dirs : '~a'), "
                   "Ribotaper.sh")))
              #t)))))
     (inputs
-     `(("bedtools" ,bedtools-2.18)
-       ("samtools" ,samtools-0.1)
-       ("r-minimal" ,r-minimal)
-       ("r-foreach" ,r-foreach)
-       ("r-xnomial" ,r-xnomial)
-       ("r-domc" ,r-domc)
-       ("r-multitaper" ,r-multitaper)
-       ("r-seqinr" ,r-seqinr)))
+     (list bedtools-2.18
+           samtools-0.1
+           r-minimal
+           r-foreach
+           r-xnomial
+           r-domc
+           r-multitaper
+           r-seqinr))
     (home-page "https://ohlerlab.mdc-berlin.de/software/RiboTaper_126/")
     (synopsis "Define translated ORFs using ribosome profiling data")
     (description
@@ -878,13 +859,10 @@ provides the Ribotaper pipeline.")
                 (string-append line "\n"
                                prefix "scripts=['scripts/TE.py'],\n"))))))))
     (inputs
-     `(("python-numpy" ,python2-numpy)
-       ("python-matplotlib" ,python2-matplotlib)
-       ("python-scipy" ,python2-scipy)
-       ("python-statsmodels" ,python2-statsmodels)))
+     (list python2-numpy python2-matplotlib python2-scipy
+           python2-statsmodels))
     (native-inputs
-     `(("python-mock" ,python2-mock)
-       ("python-nose" ,python2-nose)))
+     (list python2-mock python2-nose))
     (home-page "https://public.bmi.inf.ethz.ch/user/zhongy/RiboDiff/")
     (synopsis "Detect translation efficiency changes from ribosome footprints")
     (description "RiboDiff is a statistical tool that detects the protein
@@ -910,9 +888,9 @@ independently with transcriptional regulation.")
                 "1pxc3zdnirxbf9a0az698hd8xdik7qkhypm7v6hn922x8y9qmspm"))))
     (build-system gnu-build-system)
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (native-inputs
-     `(("bison" ,bison)))
+     (list bison))
     (arguments
      `(#:tests? #f ; There are no tests to run.
        ;; Bison must generate files, before other targets can build.
@@ -951,11 +929,9 @@ intended to behave exactly the same as the original BWK awk.")
               "0ic07q85vhw9djf23k57b21my7i5xp400m8gfqgr5gcryqvdr0yk"))))
    (build-system python-build-system)
    (native-inputs
-    `(("python-setuptools-scm" ,python-setuptools-scm)))
+    (list python-setuptools-scm))
    (propagated-inputs
-    `(("python-humanize" ,python-humanize)
-      ("python-requests" ,python-requests)
-      ("python-six" ,python-six)))
+    (list python-humanize python-requests python-six))
    (home-page "https://pypi.org/project/htsget/")
    (synopsis "Python API and command line interface for the GA4GH htsget API")
    (description "This package is a client implementation of the GA4GH htsget
@@ -1018,20 +994,17 @@ servers supporting the protocol.")
              (with-directory-excursion "/tmp/test"
                (invoke "pytest" "-v" "--doctest-modules")))))))
     (propagated-inputs
-     `(("bedtools" ,bedtools)
-       ("samtools" ,samtools)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-pysam" ,python-pysam)
-       ("python-pyyaml" ,python-pyyaml)))
-    (native-inputs
-     `(("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-cython" ,python-cython)
-       ("kentutils" ,kentutils)         ; for bedGraphToBigWig
-       ("python-six" ,python-six)
-       ;; For the test suite.
-       ("python-pytest" ,python-pytest)
-       ("python-psutil" ,python-psutil)))
+     (list bedtools samtools python-matplotlib python-pysam
+           python-pyyaml))
+    (native-inputs
+     (list python-numpy
+           python-pandas
+           python-cython
+           kentutils ; for bedGraphToBigWig
+           python-six
+           ;; For the test suite.
+           python-pytest
+           python-psutil))
     (home-page "https://pythonhosted.org/pybedtools/")
     (synopsis "Python wrapper for BEDtools programs")
     (description
@@ -1046,8 +1019,8 @@ Python.")
     (package
       (inherit pybedtools)
       (native-inputs
-       `(("python2-pathlib" ,python2-pathlib)
-         ,@(package-native-inputs pybedtools))))))
+       (modify-inputs (package-native-inputs pybedtools)
+         (prepend python2-pathlib))))))
 
 (define-public python-biom-format
   (package
@@ -1098,19 +1071,16 @@ Python.")
                (for-each (lambda (file) (chmod file #o644))
                          (find-files out "\\.gz"))))))))
     (propagated-inputs
-     `(("python-anndata" ,python-anndata)
-       ("python-numpy" ,python-numpy)
-       ("python-scipy" ,python-scipy)
-       ("python-flake8" ,python-flake8)
-       ("python-future" ,python-future)
-       ("python-click" ,python-click)
-       ("python-h5py" ,python-h5py)
-       ("python-pandas" ,python-pandas)))
-    (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-pytest" ,python-pytest)
-       ("python-pytest-cov" ,python-pytest-cov)
-       ("python-nose" ,python-nose)))
+     (list python-anndata
+           python-numpy
+           python-scipy
+           python-flake8
+           python-future
+           python-click
+           python-h5py
+           python-pandas))
+    (native-inputs
+     (list python-cython python-pytest python-pytest-cov python-nose))
     (home-page "http://www.biom-format.org")
     (synopsis "Biological Observation Matrix (BIOM) format utilities")
     (description
@@ -1149,17 +1119,15 @@ e.g. microbiome samples, genomes, metagenomes.")
              (with-directory-excursion "/tmp"
                (invoke "pytest" "-v")))))))
     (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-nose" ,python-nose)
-       ("python-pytest" ,python-pytest)))
+     (list python-cython python-nose python-pytest))
     (inputs
      `(("python" ,python-wrapper)))
     (propagated-inputs
-     `(("htslib" ,htslib)               ; for bgzip, looked up in PATH
-       ("samtools" ,samtools)           ; looked up in PATH
-       ("lz4" ,lz4) ; for lz4c
-       ("python-click" ,python-click)
-       ("python-numpy" ,python-numpy)))
+     (list htslib ; for bgzip, looked up in PATH
+           samtools ; looked up in PATH
+           lz4 ; for lz4c
+           python-click
+           python-numpy))
     (home-page "https://github.com/mirnylab/pairtools")
     (synopsis "Process mapped Hi-C data")
     (description "Pairtools is a simple and fast command-line framework to
@@ -1226,12 +1194,9 @@ alignments and perform the following operations:
                            (find-files bin "\\.pl$"))
                  #t)))))))
     (inputs
-     `(("perl-module-build" ,perl-module-build)
-       ("perl-data-stag" ,perl-data-stag)
-       ("perl-libwww" ,perl-libwww)
-       ("perl-uri" ,perl-uri)))
+     (list perl-module-build perl-data-stag perl-libwww perl-uri))
     (native-inputs
-     `(("perl-test-most" ,perl-test-most)))
+     (list perl-test-most))
     (home-page "https://metacpan.org/release/BioPerl")
     (synopsis "Bioinformatics toolkit")
     (description
@@ -1259,11 +1224,9 @@ provide a coordinated and extensible framework to do computational biology.")
          "0hjg0igfkpvh27zdkdr6pa7cqm9n6r7cwz0np74cl4wmawgvr9hj"))))
     (build-system perl-build-system)
     (native-inputs
-     `(("perl-module-build" ,perl-module-build)
-       ("pkg-config" ,pkg-config)))
+     (list perl-module-build pkg-config))
     (propagated-inputs
-     `(("bioperl-minimal" ,bioperl-minimal)
-       ("htslib" ,htslib-1.9)))
+     (list bioperl-minimal htslib-1.9))
     (home-page "https://metacpan.org/release/Bio-DB-HTS")
     (synopsis "Perl interface to HTS library for DNA sequencing")
     (description "This is a Perl interface to the HTS library for DNA
@@ -1289,7 +1252,7 @@ sequencing.")
            ;; Some tests require a home directory to be set.
            (lambda _ (setenv "HOME" "/tmp") #t)))))
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)))
+     (list python-numpy))
     (home-page "https://biopython.org/")
     (synopsis "Tools for biological computation in Python")
     (description
@@ -1363,7 +1326,7 @@ relying on a complex dependency tree.")
              (when tests?
                (invoke "./bin/biosoup_test")))))))
     (native-inputs
-     `(("googletest" ,googletest)))
+     (list googletest))
     (home-page "https://github.com/rvaser/biosoup")
     (synopsis "C++ support library for bioinformatics tools")
     (description "Biosoup is a C++ collection of header-only data structures
@@ -1394,11 +1357,11 @@ used for storage and logging in bioinformatics tools.")
              (when tests?
                (invoke "./bin/bioparser_test")))))))
     (inputs
-     `(("biosoup" ,biosoup)))
+     (list biosoup))
     (propagated-inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (native-inputs
-     `(("googletest" ,googletest)))
+     (list googletest))
     (home-page "https://github.com/rvaser/bioparser")
     (synopsis "C++ library for parsing several formats in bioinformatics")
     (description "Bioparser is a C++ header only parsing library for several
@@ -1448,12 +1411,9 @@ compressed files.")
         ("rust-serde" ,rust-serde-1)
         ("rust-seq-io" ,rust-seq-io-0.3))))
     (inputs
-     `(("bioparser" ,bioparser)
-       ("biosoup" ,biosoup)))
+     (list bioparser biosoup))
     (native-inputs
-     `(("cmake" ,cmake)
-       ("pkg-config" ,pkg-config)
-       ("googletest" ,googletest)))
+     (list cmake pkg-config googletest))
     (home-page "https://github.com/Kevinzjy/circtools")
     (synopsis "Accelerating functions in CIRI toolkit")
     (description "This package provides accelerated functions for the CIRI
@@ -1501,21 +1461,19 @@ consensus sequences.")
              (substitute* "CIRI_long/main.py"
                (("os.chmod\\(lib_path.*") "")))))))
     (inputs
-     `(("circtools" ,circtools)
-       ("python-biopython" ,python-biopython)
-       ("python-bwapy" ,python-bwapy)
-       ("python-levenshtein" ,python-levenshtein)
-       ("python-mappy" ,python-mappy)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-pysam" ,python-pysam)
-       ("python-pyspoa" ,python-pyspoa)
-       ("python-scikit-learn" ,python-scikit-learn)
-       ("python-scipy" ,python-scipy)))
-    (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-nose" ,python-nose)
-       ("python-setuptools" ,python-setuptools)))
+     (list circtools
+           python-biopython
+           python-bwapy
+           python-levenshtein
+           python-mappy
+           python-numpy
+           python-pandas
+           python-pysam
+           python-pyspoa
+           python-scikit-learn
+           python-scipy))
+    (native-inputs
+     (list python-cython python-nose python-setuptools))
     (home-page "https://ciri-cookbook.readthedocs.io/")
     (synopsis "Circular RNA identification for Nanopore sequencing")
     (description "CIRI-long is a package for circular RNA identification using
@@ -1583,14 +1541,14 @@ $(BOOST_LIB)/libboost_program_options.so"))))
                (mkdir-p bin)
                (install-file "bin/QTLtools" bin)))))))
     (inputs
-     `(("curl" ,curl)
-       ("gsl" ,gsl)
-       ("boost" ,boost)
-       ("rmath-standalone" ,rmath-standalone)
-       ("htslib" ,htslib-1.3)
-       ("openssl" ,openssl)
-       ("openblas" ,openblas)
-       ("zlib" ,zlib)))
+     (list curl
+           gsl
+           boost
+           rmath-standalone
+           htslib-1.3
+           openssl
+           openblas
+           zlib))
     (home-page "https://qtltools.github.io/qtltools/")
     (synopsis "Tool set for molecular QTL discovery and analysis")
     (description "QTLtools is a tool set for molecular QTL discovery
@@ -1653,8 +1611,7 @@ providing them a set of re-usable tools.")
          ;; so the tests fail.
          #:out-of-source? #f))
       (inputs
-       `(("bpp-core" ,bpp-core)
-         ("bpp-seq" ,bpp-seq)))
+       (list bpp-core bpp-seq))
       (home-page "http://biopp.univ-montp2.fr")
       (synopsis "Bio++ phylogenetic Library")
       (description
@@ -1685,8 +1642,7 @@ library provides phylogenetics-related modules.")
        `(#:parallel-build? #f
          #:tests? #f)) ; There are no tests.
       (inputs
-       `(("bpp-core" ,bpp-core)
-         ("bpp-seq" ,bpp-seq)))
+       (list bpp-core bpp-seq))
       (home-page "http://biopp.univ-montp2.fr")
       (synopsis "Bio++ population genetics library")
       (description
@@ -1719,7 +1675,7 @@ library provides population genetics-related modules.")
          ;; so the tests fail.
          #:out-of-source? #f))
       (inputs
-       `(("bpp-core" ,bpp-core)))
+       (list bpp-core))
       (home-page "http://biopp.univ-montp2.fr")
       (synopsis "Bio++ sequence library")
       (description
@@ -1750,9 +1706,7 @@ library provides sequence-related modules.")
        `(#:parallel-build? #f
          #:tests? #f)) ; There are no tests.
       (native-inputs
-       `(("groff" ,groff)
-         ("man-db" ,man-db)
-         ("texinfo" ,texinfo)))
+       (list groff man-db texinfo))
       (inputs
        `(("bpp-core" ,bpp-core)
          ("bpp-seq" ,bpp-seq)
@@ -1891,7 +1845,7 @@ package provides command line tools using the Bio++ library.")
        ("perl" ,perl)
        ("python" ,python-wrapper)))
     (native-inputs
-     `(("cpio" ,cpio)))
+     (list cpio))
     (home-page "https://blast.ncbi.nlm.nih.gov")
     (synopsis "Basic local alignment search tool")
     (description
@@ -1977,13 +1931,9 @@ confidence to have in an alignment.")
                         '("bless" "kmc/bin/kmc")))))
          (delete 'configure))))
     (native-inputs
-     `(("perl" ,perl)))
+     (list perl))
     (inputs
-     `(("openmpi" ,openmpi)
-       ("boost" ,boost)
-       ("sparsehash" ,sparsehash)
-       ("pigz" ,pigz)
-       ("zlib" ,zlib)))
+     (list openmpi boost sparsehash pigz zlib))
     (supported-systems '("x86_64-linux"))
     (home-page "https://sourceforge.net/p/bless-ec/wiki/Home/")
     (synopsis "Bloom-filter-based error correction tool for NGS reads")
@@ -2042,10 +1992,7 @@ errors at the end of reads.")
        ("zlib" ,zlib)
        ("python" ,python-wrapper)))
     (native-inputs
-     `(("perl" ,perl)
-       ("perl-clone" ,perl-clone)
-       ("perl-test-deep" ,perl-test-deep)
-       ("perl-test-simple" ,perl-test-simple)))
+     (list perl perl-clone perl-test-deep perl-test-simple))
     (home-page "http://bowtie-bio.sourceforge.net/bowtie2/index.shtml")
     (synopsis "Fast and sensitive nucleotide sequence read aligner")
     (description
@@ -2086,9 +2033,7 @@ gapped, local, and paired-end alignment modes.")
        (modify-phases %standard-phases
          (delete 'configure))))
     (inputs
-     `(("python-wrapper" ,python-wrapper)
-       ("tbb" ,tbb-2020)
-       ("zlib" ,zlib)))
+     (list python-wrapper tbb-2020 zlib))
     (supported-systems '("x86_64-linux"))
     (home-page "http://bowtie-bio.sourceforge.net/index.shtml")
     (synopsis "Fast aligner for short nucleotide sequence reads")
@@ -2210,7 +2155,7 @@ splice junctions between exons.")
                (install-file "bwa.1" man))))
            ;; no "configure" script
           (delete 'configure))))
-    (inputs `(("zlib" ,zlib)))
+    (inputs (list zlib))
     ;; Non-portable SSE instructions are used so building fails on platforms
     ;; other than x86_64.
     (supported-systems '("x86_64-linux"))
@@ -2251,9 +2196,7 @@ and more accurate.  BWA-MEM also has better performance than BWA-backtrack for
                (substitute* "pssm.c"
                  (("inline int map") "int map"))))))))
     (inputs
-     `(("gdsl" ,gdsl)
-       ("zlib" ,zlib)
-       ("perl" ,perl)))
+     (list gdsl zlib perl))
     (home-page "http://bwa-pssm.binf.ku.dk/")
     (synopsis "Burrows-Wheeler transform-based probabilistic short read mapper")
     (description
@@ -2292,9 +2235,9 @@ well as many of the command line options.")
                (("^checkX.*") ""))
              #t)))))
     (inputs
-     `(("bwa" ,bwa)))
+     (list bwa))
     (native-inputs
-     `(("python-toolshed" ,python-toolshed)))
+     (list python-toolshed))
     (home-page "https://github.com/brentp/bwa-meth")
     (synopsis "Fast and accurante alignment of BS-Seq reads")
     (description
@@ -2322,13 +2265,11 @@ off-target reads for a capture method that targets CpG-rich region.")
                 "0mclahslz34vq9x424jmzsxk0nmpm1j716fa8h3zwr9ssvch7skc"))))
     (build-system python-build-system)
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)))
+     (list python-numpy))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (native-inputs
-     `(("python-lzo" ,python-lzo)
-       ("python-nose" ,python-nose)
-       ("python-cython" ,python-cython)))
+     (list python-lzo python-nose python-cython))
     (home-page "https://github.com/bxlab/bx-python")
     (synopsis "Tools for manipulating biological data")
     (description
@@ -2350,13 +2291,9 @@ multiple sequence alignments.")
     (arguments
      `(#:tests? #f)) ; The tests require network access.
     (native-inputs
-     `(("python-psutil" ,python-psutil)
-       ("python-htsget" ,python-htsget)))
+     (list python-psutil python-htsget))
     (propagated-inputs
-     `(("python-requests" ,python-requests)
-       ("python-tqdm" ,python-tqdm)
-       ("python-urllib3" ,python-urllib3)
-       ("python-responses" ,python-responses)))
+     (list python-requests python-tqdm python-urllib3 python-responses))
     (home-page "https://github.com/EGA-archive/ega-download-client")
     (synopsis "Python client for EGA")
     (description "This package is a python-based tool for viewing and
@@ -2428,18 +2365,16 @@ has several key features:
                            " and not TestHeaderCRAM"
                            " and not test_text_processing")))))))))
     (propagated-inputs
-     `(("htslib" ,htslib-1.10)))    ; Included from installed header files.
+     (list htslib-1.10))    ; Included from installed header files.
     (inputs
-     `(("ncurses" ,ncurses)
-       ("curl" ,curl)
-       ("zlib" ,zlib)))
+     (list ncurses curl zlib))
     (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-pytest" ,python-pytest)
-       ;; Dependencies below are are for tests only.
-       ("samtools" ,samtools-1.10)
-       ("bcftools" ,bcftools-1.10)
-       ("python-nose" ,python-nose)))
+     (list python-cython
+           python-pytest
+           ;; Dependencies below are are for tests only.
+           samtools-1.10
+           bcftools-1.10
+           python-nose))
     (home-page "https://github.com/pysam-developers/pysam")
     (synopsis "Python bindings to the SAMtools C API")
     (description
@@ -2468,7 +2403,7 @@ also includes an interface for tabix.")
     ;; Tests are not included
     (arguments '(#:tests? #f))
     (native-inputs
-     `(("python-sphinx" ,python-sphinx)))
+     (list python-sphinx))
     (home-page "https://github.com/benjschiller/twobitreader")
     (synopsis "Python library for reading .2bit files")
     (description
@@ -2491,17 +2426,16 @@ UCSC genome browser.")
      ;; Some test files are not included.
      `(#:tests? #f))
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)
-       ("python-scipy" ,python-scipy)
-       ("python-pandas" ,python-pandas)
-       ("python-pysam" ,python-pysam)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-biopython" ,python-biopython)
-       ("python-twobitreader" ,python-twobitreader)
-       ("python-termcolor" ,python-termcolor)))
-    (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-nose" ,python-nose)))
+     (list python-numpy
+           python-scipy
+           python-pandas
+           python-pysam
+           python-matplotlib
+           python-biopython
+           python-twobitreader
+           python-termcolor))
+    (native-inputs
+     (list python-cython python-nose))
     (home-page "https://github.com/joshuagryphon/plastid")
     (synopsis "Python library for genomic analysis")
     (description
@@ -2558,12 +2492,12 @@ high-throughput sequencing data – with an emphasis on simplicity.")
                   "TEcount")))
              #t)))))
     (inputs
-     `(("coreutils" ,coreutils)
-       ("bedtools" ,bedtools)
-       ("python-argparse" ,python2-argparse)
-       ("python-pysam" ,python2-pysam)
-       ("r-minimal" ,r-minimal)
-       ("r-deseq2" ,r-deseq2)))
+     (list coreutils
+           bedtools
+           python2-argparse
+           python2-pysam
+           r-minimal
+           r-deseq2))
     (home-page "https://github.com/mhammell-laboratory/tetoolkit")
     (synopsis "Transposable elements in differential enrichment analysis")
     (description
@@ -2615,7 +2549,7 @@ are not included due to their size.")
              (mkdir-p (string-append (assoc-ref outputs "out") "/bin"))
              #t)))))
     (inputs
-     `(("perl" ,perl)))
+     (list perl))
     (home-page "http://weizhongli-lab.org/cd-hit/")
     (synopsis "Cluster and compare protein or nucleotide sequences")
     (description
@@ -2680,20 +2614,20 @@ setup"))))
          ;; This is not a library
          (delete 'sanity-check))))
     (inputs
-     `(("htseq" ,htseq)
-       ("python-pybedtools" ,python-pybedtools)
-       ("python-cython" ,python-cython)
-       ("python-scikit-learn" ,python-scikit-learn)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-pandas" ,python-pandas)
-       ("python-pysam" ,python-pysam)
-       ("python-numpy" ,python-numpy)
-       ("python-scipy" ,python-scipy)))
-    (native-inputs
-     `(("python-setuptools-git" ,python-setuptools-git)
-       ("python-mock" ,python-mock)   ; for tests
-       ("python-nose" ,python-nose)   ; for tests
-       ("python-pytz" ,python-pytz))) ; for tests
+     (list htseq
+           python-pybedtools
+           python-cython
+           python-scikit-learn
+           python-matplotlib
+           python-pandas
+           python-pysam
+           python-numpy
+           python-scipy))
+    (native-inputs
+     (list python-setuptools-git
+           python-mock ; for tests
+           python-nose ; for tests
+           python-pytz)) ; for tests
     (home-page "https://github.com/YeoLab/clipper")
     (synopsis "CLIP peak enrichment recognition")
     (description
@@ -2729,7 +2663,7 @@ setup"))))
                (install-file "CodingQuarry" bin)
                (install-file "CufflinksGTF_to_CodingQuarryGFF3.py" bin))
              #t)))))
-    (inputs `(("openmpi" ,openmpi)))
+    (inputs (list openmpi))
     (native-search-paths
      (list (search-path-specification
             (variable "QUARRY_PATH")
@@ -2754,7 +2688,7 @@ gene predictor designed to work with assembled, aligned RNA-seq transcripts.")
                 "1vm30mzncwdv881vrcwg11vzvrsmwy4wg80j5i0lcfk6dlld50w6"))))
     (build-system gnu-build-system)
     (inputs
-     `(("argtable" ,argtable)))
+     (list argtable))
     (home-page "http://www.clustal.org/omega/")
     (synopsis "Multiple sequence aligner for protein and DNA/RNA")
     (description
@@ -2782,14 +2716,10 @@ time.")
                   (delete-file-recursively ".eggs")))))
     (build-system python-build-system)
     (inputs
-     `(("python-bx-python" ,python-bx-python)
-       ("python-numpy" ,python-numpy)
-       ("python-pybigwig" ,python-pybigwig)
-       ("python-pysam" ,python-pysam)
-       ("zlib" ,zlib)))
+     (list python-bx-python python-numpy python-pybigwig python-pysam
+           zlib))
     (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-nose" ,python-nose)))
+     (list python-cython python-nose))
     (home-page "http://crossmap.sourceforge.net/")
     (synopsis "Convert genome coordinates between assemblies")
     (description
@@ -2811,9 +2741,7 @@ file formats including SAM/BAM, Wiggle/BigWig, BED, GFF/GTF, VCF.")
          "14v5yyasq2bz34j38wi3xfcp06jj7l35ppibjcn95l2n73hz3zwi"))))
     (build-system python-build-system)
     (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-pytest" ,python-pytest)
-       ("python-xopen" ,python-xopen)))
+     (list python-cython python-pytest python-xopen))
     (home-page "https://github.com/marcelm/dnaio/")
     (synopsis "Read FASTA and FASTQ files efficiently")
     (description
@@ -2833,7 +2761,7 @@ files.  The code was previously part of the cutadapt tool.")
                 "1xnl80nblysj6dylj4683wgrfa425rkx4dp5k65hvwdns9pw753x"))))
     (build-system python-build-system)
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://github.com/deeptools/deeptools_intervals")
     (synopsis "Create GTF-based interval trees with associated meta-data")
     (description
@@ -2857,18 +2785,17 @@ interval trees with associated meta-data.  It is primarily used by the
                 "0l09vyynz6s6w7fnyd94rpys4a6aja6kp4gli64pngdxdz3md1nl"))))
     (build-system python-build-system)
     (native-inputs
-     `(("python-mock" ,python-mock)
-       ("python-nose" ,python-nose)))
+     (list python-mock python-nose))
     (propagated-inputs
-     `(("python-matplotlib" ,python-matplotlib)
-       ("python-numpy" ,python-numpy)
-       ("python-numpydoc" ,python-numpydoc)
-       ("python-py2bit" ,python-py2bit)
-       ("python-pybigwig" ,python-pybigwig)
-       ("python-pysam" ,python-pysam)
-       ("python-scipy" ,python-scipy)
-       ("python-deeptoolsintervals" ,python-deeptoolsintervals)
-       ("python-plotly" ,python-plotly-2.4.1)))
+     (list python-matplotlib
+           python-numpy
+           python-numpydoc
+           python-py2bit
+           python-pybigwig
+           python-pysam
+           python-scipy
+           python-deeptoolsintervals
+           python-plotly-2.4.1))
     (home-page "https://pypi.org/project/deepTools/")
     (synopsis "Useful tools for exploring deep sequencing data")
     (description "This package addresses the challenge of handling large amounts
@@ -2907,12 +2834,9 @@ annotations of the genome.")
                (("os.path.exists\\('PKG-INFO'\\):")
                 "os.path.exists('totally-does-not-exist'):")))))))
     (inputs
-     `(("python-dnaio" ,python-dnaio)
-       ("python-xopen" ,python-xopen)))
+     (list python-dnaio python-xopen))
     (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-pytest" ,python-pytest)
-       ("python-setuptools-scm" ,python-setuptools-scm)))
+     (list python-cython python-pytest python-setuptools-scm))
     (home-page "https://cutadapt.readthedocs.io/en/stable/")
     (synopsis "Remove adapter sequences from nucleotide sequencing reads")
     (description
@@ -2944,8 +2868,7 @@ other types of unwanted sequence from high-throughput sequencing reads.")
        (modify-phases %standard-phases
          (delete 'configure))))
     (inputs
-     `(("zlib" ,zlib)
-       ("curl" ,curl)))
+     (list zlib curl))
     (native-inputs
      `(("doxygen" ,doxygen)
        ;; Need for tests
@@ -2983,11 +2906,9 @@ files.")
                (("libs=\\[") "libs=[\"BigWig\", "))
              #t)))))
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)))
+     (list python-numpy))
     (inputs
-     `(("libbigwig" ,libbigwig)
-       ("zlib" ,zlib)
-       ("curl" ,curl)))
+     (list libbigwig zlib curl))
     (home-page "https://github.com/dpryan79/pyBigWig")
     (synopsis "Access bigWig files in Python using libBigWig")
     (description
@@ -3022,18 +2943,16 @@ accessing bigWig files.")
                                "\"test requires network access\")\n"
                                all))))))))
     (propagated-inputs
-     `(("python-cachecontrol" ,python-cachecontrol)
-       ("python-lockfile" ,python-lockfile)
-       ("python-mistune" ,python-mistune)
-       ("python-rdflib" ,python-rdflib)
-       ("python-rdflib-jsonld" ,python-rdflib-jsonld)
-       ("python-requests" ,python-requests)
-       ("python-ruamel.yaml" ,python-ruamel.yaml)
-       ("python-typing-extensions" ,python-typing-extensions)))
-    (native-inputs
-     `(("python-black" ,python-black)
-       ("python-pytest" ,python-pytest)
-       ("python-pytest-runner" ,python-pytest-runner)))
+     (list python-cachecontrol
+           python-lockfile
+           python-mistune
+           python-rdflib
+           python-rdflib-jsonld
+           python-requests
+           python-ruamel.yaml
+           python-typing-extensions))
+    (native-inputs
+     (list python-black python-pytest python-pytest-runner))
     (home-page "https://github.com/common-workflow-language/schema_salad")
     (synopsis "Schema Annotations for Linked Avro Data (SALAD)")
     (description
@@ -3105,30 +3024,30 @@ and record oriented data modeling and the Semantic Web.")
              (substitute* "tox.ini"
                (("-n auto") "")))))))
     (propagated-inputs
-     `(("python-argcomplete" ,python-argcomplete)
-       ("python-bagit" ,python-bagit)
-       ("python-coloredlogs" ,python-coloredlogs)
-       ("python-mypy-extensions" ,python-mypy-extensions)
-       ("python-prov" ,python-prov)
-       ("python-pydot" ,python-pydot)
-       ("python-psutil" ,python-psutil)
-       ("python-rdflib" ,python-rdflib)
-       ("python-requests" ,python-requests)
-       ("python-ruamel.yaml" ,python-ruamel.yaml)
-       ("python-schema-salad" ,python-schema-salad)
-       ("python-shellescape" ,python-shellescape)
-       ("python-typing-extensions" ,python-typing-extensions)
-       ;; Not listed as needed but still necessary:
-       ("node" ,node)))
-    (native-inputs
-     `(("python-arcp" ,python-arcp)
-       ("python-humanfriendly" ,python-humanfriendly)
-       ("python-mock" ,python-mock)
-       ("python-pytest" ,python-pytest)
-       ("python-pytest-cov" ,python-pytest-cov)
-       ("python-pytest-mock" ,python-pytest-mock)
-       ("python-pytest-runner" ,python-pytest-runner)
-       ("python-rdflib-jsonld" ,python-rdflib-jsonld)))
+     (list python-argcomplete
+           python-bagit
+           python-coloredlogs
+           python-mypy-extensions
+           python-prov
+           python-pydot
+           python-psutil
+           python-rdflib
+           python-requests
+           python-ruamel.yaml
+           python-schema-salad
+           python-shellescape
+           python-typing-extensions
+           ;; Not listed as needed but still necessary:
+           node))
+    (native-inputs
+     (list python-arcp
+           python-humanfriendly
+           python-mock
+           python-pytest
+           python-pytest-cov
+           python-pytest-mock
+           python-pytest-runner
+           python-rdflib-jsonld))
     (home-page
      "https://github.com/common-workflow-language/common-workflow-language")
     (synopsis "Common Workflow Language reference implementation")
@@ -3257,10 +3176,7 @@ with Python.")
                (copy-recursively "excludeTemplates" templates)
                #t))))))
     (inputs
-     `(("boost" ,boost)
-       ("bzip2" ,bzip2)
-       ("htslib" ,htslib)
-       ("zlib" ,zlib)))
+     (list boost bzip2 htslib zlib))
     (home-page "https://github.com/dellytools/delly")
     (synopsis "Integrated structural variant prediction method")
     (description "Delly is an integrated structural variant prediction method
@@ -3333,12 +3249,12 @@ bases are detected.")
                (wrap-program (string-append bin "/RepeatMasker")
                  `("PERL5LIB" ":" prefix (,path ,share)))))))))
     (inputs
-     `(("perl" ,perl)
-       ("perl-text-soundex" ,perl-text-soundex)
-       ("python" ,python)
-       ("python-h5py" ,python-h5py)
-       ("hmmer" ,hmmer)
-       ("trf" ,trf)))
+     (list perl
+           perl-text-soundex
+           python
+           python-h5py
+           hmmer
+           trf))
     (home-page "https://github.com/Benson-Genomics-Lab/TRF")
     (synopsis "Tandem Repeats Finder: a program to analyze DNA sequences")
     (description "A tandem repeat in DNA is two or more adjacent, approximate
@@ -3373,7 +3289,7 @@ bases are detected.")
              (substitute* "CMakeLists.txt" (("-march=native") ""))
              #t)))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://github.com/bbuchfink/diamond")
     (synopsis "Accelerated BLAST compatible local sequence aligner")
     (description
@@ -3428,9 +3344,7 @@ data and settings.")
                (("#define FASTA_HPP" line)
                 (string-append line "\n#include <random>"))))))))
     (inputs
-     `(("boost" ,boost)
-       ("cairo" ,cairo)
-       ("rmath-standalone" ,rmath-standalone)))
+     (list boost cairo rmath-standalone))
     (native-inputs
      `(("texlive" ,(texlive-updmap.cfg (list texlive-cm
                                              texlive-amsfonts
@@ -3491,11 +3405,8 @@ of nucleic acid binding proteins.")
                          (find-files "../bin" ".*"))
                #t))))))
     (inputs
-     `(("gsl" ,gsl)
-       ("lapack" ,lapack)
-       ("openblas" ,openblas)
-       ("perl" ,perl)
-       ("gfortran" ,gfortran "lib")))
+     (list gsl lapack openblas perl
+           `(,gfortran "lib")))
     (home-page "https://github.com/DReichLab/EIG")
     (synopsis "Tools for population genetics")
     (description "The EIGENSOFT package provides tools for population
@@ -3585,23 +3496,23 @@ quantitative phenotypes.")
                      "-filter" "-help")
              #t)))))
     (inputs
-     `(("edirect-go-programs" ,edirect-go-programs)
-       ("perl-html-parser" ,perl-html-parser)
-       ("perl-encode-locale" ,perl-encode-locale)
-       ("perl-file-listing" ,perl-file-listing)
-       ("perl-html-tagset" ,perl-html-tagset)
-       ("perl-html-tree" ,perl-html-tree)
-       ("perl-http-cookies" ,perl-http-cookies)
-       ("perl-http-date" ,perl-http-date)
-       ("perl-http-message" ,perl-http-message)
-       ("perl-http-negotiate" ,perl-http-negotiate)
-       ("perl-lwp-mediatypes" ,perl-lwp-mediatypes)
-       ("perl-lwp-protocol-https" ,perl-lwp-protocol-https)
-       ("perl-net-http" ,perl-net-http)
-       ("perl-uri" ,perl-uri)
-       ("perl-www-robotrules" ,perl-www-robotrules)
-       ("perl-xml-simple" ,perl-xml-simple)
-       ("perl" ,perl)))
+     (list edirect-go-programs
+           perl-html-parser
+           perl-encode-locale
+           perl-file-listing
+           perl-html-tagset
+           perl-html-tree
+           perl-http-cookies
+           perl-http-date
+           perl-http-message
+           perl-http-negotiate
+           perl-lwp-mediatypes
+           perl-lwp-protocol-https
+           perl-net-http
+           perl-uri
+           perl-www-robotrules
+           perl-xml-simple
+           perl))
     (home-page "https://www.ncbi.nlm.nih.gov/books/NBK179288/")
     (synopsis "Tools for accessing the NCBI's set of databases")
     (description
@@ -3658,16 +3569,16 @@ software to answer ad hoc questions.")
     (native-inputs '())
     (propagated-inputs '())
     (inputs
-     `(("go-github-com-fatih-color" ,go-github-com-fatih-color)
-       ("go-github-com-fogleman-gg" ,go-github-com-fogleman-gg)
-       ("go-github-com-gedex-inflector" ,go-github-com-gedex-inflector)
-       ("go-github-com-golang-freetype" ,go-github-com-golang-freetype)
-       ("go-github-com-klauspost-cpuid" ,go-github-com-klauspost-cpuid)
-       ("go-github-com-pbnjay-memory" ,go-github-com-pbnjay-memory)
-       ("go-github-com-surgebase-porter2" ,go-github-com-surgebase-porter2)
-       ("go-golang-org-rainycape-unidecode" ,go-golang-org-rainycape-unidecode)
-       ("go-golang-org-x-image" ,go-golang-org-x-image)
-       ("go-golang-org-x-text" ,go-golang-org-x-text)))))
+     (list go-github-com-fatih-color
+           go-github-com-fogleman-gg
+           go-github-com-gedex-inflector
+           go-github-com-golang-freetype
+           go-github-com-klauspost-cpuid
+           go-github-com-pbnjay-memory
+           go-github-com-surgebase-porter2
+           go-golang-org-rainycape-unidecode
+           go-golang-org-x-image
+           go-golang-org-x-text))))
 
 (define-public exonerate
   (package
@@ -3687,9 +3598,9 @@ software to answer ad hoc questions.")
     (arguments
      `(#:parallel-build? #f)) ; Building in parallel fails on some machines.
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     (list pkg-config))
     (inputs
-     `(("glib" ,glib)))
+     (list glib))
     (home-page
      "https://www.ebi.ac.uk/about/vertebrate-genomics/software/exonerate")
     (synopsis "Generic tool for biological sequence alignment")
@@ -3736,10 +3647,7 @@ dynamic programming or a variety of heuristics.")
                (("check_version\\(PACKAGE_VERSION\\);") ""))
              #t)))))
     (inputs
-     `(("boost" ,boost)
-       ("bamtools" ,bamtools)
-       ("protobuf" ,protobuf)
-       ("zlib" ,zlib)))
+     (list boost bamtools protobuf zlib))
     (home-page "http://bio.math.berkeley.edu/eXpress")
     (synopsis "Streaming quantification for high-throughput genomic sequencing")
     (description
@@ -3859,10 +3767,10 @@ reasonable amount of time and memory.  For large alignments, FastTree is
                 "01jqzw386873sr0pjp1wr4rn8fsga2vxs1qfmicvx1pjr72007wy"))))
     (build-system gnu-build-system)
     (inputs
-     `(("libgtextutils" ,libgtextutils)))
+     (list libgtextutils))
     (native-inputs
-     `(("gcc" ,gcc-6) ;; doesn't build with later versions
-       ("pkg-config" ,pkg-config)))
+     (list gcc-6 ;; doesn't build with later versions
+           pkg-config))
     (home-page "http://hannonlab.cshl.edu/fastx_toolkit/")
     (synopsis "Tools for FASTA/FASTQ file preprocessing")
     (description
@@ -3909,11 +3817,9 @@ results.  The FASTX-Toolkit tools perform some of these preprocessing tasks.")
                     (bin (string-append out "/bin/")))
                (install-file "flexbar" bin)))))))
     (inputs
-     `(("tbb" ,tbb-2020)
-       ("zlib" ,zlib)))
+     (list tbb-2020 zlib))
     (native-inputs
-     `(("pkg-config" ,pkg-config)
-       ("seqan" ,seqan-2)))
+     (list pkg-config seqan-2))
     (home-page "https://github.com/seqan/flexbar")
     (synopsis "Barcode and adapter removal tool for sequencing platforms")
     (description
@@ -4052,8 +3958,7 @@ genes in incomplete assemblies or complete genomes.")
                  (install-file "fxtract" bin)
                  #t))))))
       (inputs
-       `(("pcre" ,pcre)
-         ("zlib" ,zlib)))
+       (list pcre zlib))
       (native-inputs
        ;; ctskennerton-util is licensed under GPL2.
        `(("ctskennerton-util"
@@ -4100,9 +4005,7 @@ comment or quality sections.")
                   #t))))
     (build-system gnu-build-system)
     (inputs
-     `(("gsl" ,gsl)
-       ("openblas" ,openblas)
-       ("zlib" ,zlib)))
+     (list gsl openblas zlib))
     (native-inputs
      `(("catch" ,catch-framework2-1)
        ("perl" ,perl)
@@ -4166,12 +4069,9 @@ genome-wide association studies}.")
                (("Cython.Setup") "Cython.Build"))
              #t)))))
     (inputs
-     `(("python-scipy" ,python2-scipy)
-       ("python-numpy" ,python2-numpy)
-       ("python-pysam" ,python2-pysam)
-       ("python-networkx" ,python2-networkx)))
+     (list python2-scipy python2-numpy python2-pysam python2-networkx))
     (native-inputs
-     `(("python-cython" ,python2-cython)))
+     (list python2-cython))
     ;; The canonical <http://grit-bio.org> home page times out as of 2020-01-21.
     (home-page "https://github.com/nboley/grit")
     (synopsis "Tool for integrative analysis of RNA-seq type assays")
@@ -4234,11 +4134,9 @@ estimates transcript expression.")
                           "hisat(-(build|align|inspect)(-(s|l)(-debug)*)*)*$")))))
          (delete 'configure))))
     (native-inputs
-     `(("unzip" ,unzip)))
+     (list unzip))
     (inputs
-     `(("perl" ,perl)
-       ("python" ,python)
-       ("zlib" ,zlib)))
+     (list perl python zlib))
     ;; Non-portable SSE instructions are used so building fails on platforms
     ;; other than x86_64.
     (supported-systems '("x86_64-linux"))
@@ -4297,8 +4195,7 @@ particular, reads spanning multiple exons.")
                (mkdir-p doc)
                (install-file "doc/manual.inc.html" doc)))))))
     (native-inputs
-     `(("perl" ,perl)
-       ("pandoc" ,pandoc)))             ; for documentation
+     (list perl pandoc))             ; for documentation
     (inputs
      `(("python" ,python-wrapper)))
     (home-page "https://daehwankimlab.github.io/hisat2/")
@@ -4329,8 +4226,7 @@ indexing scheme is called a @dfn{Hierarchical Graph FM index} (HGFM).")
         (base32
          "0s9wf6n0qanbx8qs6igfl3vyjikwbrvh4d9d6mv54yp3xysykzlj"))))
     (build-system gnu-build-system)
-    (native-inputs `(("perl" ,perl)
-                     ("python" ,python))) ; for tests
+    (native-inputs (list perl python)) ; for tests
     (home-page "http://hmmer.org/")
     (synopsis "Biosequence analysis using profile hidden Markov models")
     (description
@@ -4355,13 +4251,12 @@ HMMs).")
                 "0pk41vkzxsbb5nv644325mh8akmz4zdply9r2s80dgg5b21pgp0b"))))
     (build-system python-build-system)
     (native-inputs
-     `(("python-cython" ,python-cython)))
+     (list python-cython))
     ;; Numpy needs to be propagated when htseq is used as a Python library.
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)))
+     (list python-numpy))
     (inputs
-     `(("python-pysam" ,python-pysam)
-       ("python-matplotlib" ,python-matplotlib)))
+     (list python-pysam python-matplotlib))
     (home-page "https://htseq.readthedocs.io/")
     (synopsis "Analysing high-throughput sequencing data with Python")
     (description
@@ -4411,7 +4306,7 @@ from high-throughput sequencing assays.")
        ("java-commons-jexl-2" ,java-commons-jexl-2)
        ("java-xz" ,java-xz)))
     (native-inputs
-     `(("java-testng" ,java-testng)))
+     (list java-testng))
     (home-page "http://samtools.github.io/htsjdk/")
     (synopsis "Java API for high-throughput sequencing data (HTS) formats")
     (description
@@ -4454,7 +4349,7 @@ manipulating HTS data.")
        ("java-commons-jexl-2" ,java-commons-jexl-2)
        ("java-xz" ,java-xz)))
     (native-inputs
-     `(("java-junit" ,java-junit)))
+     (list java-junit))
     (home-page "http://samtools.github.io/htsjdk/")
     (synopsis "Java API for high-throughput sequencing data (HTS) formats")
     (description
@@ -4557,10 +4452,9 @@ manipulating HTS data.")
              #t))
          (replace 'install (install-jars "dist")))))
     (inputs
-     `(("java-htsjdk" ,java-htsjdk)
-       ("java-guava" ,java-guava)))
+     (list java-htsjdk java-guava))
     (native-inputs
-     `(("java-testng" ,java-testng)))
+     (list java-testng))
     (home-page "http://broadinstitute.github.io/picard/")
     (synopsis "Tools for manipulating high-throughput sequencing data and formats")
     (description "Picard is a set of Java command line tools for manipulating
@@ -4647,10 +4541,9 @@ Class-Path: /~a \
              (rename-file "build.xml.new" "build.xml")
              #t)))))
     (propagated-inputs
-     `(("java-htsjdk" ,java-htsjdk-2.10.1)))
+     (list java-htsjdk-2.10.1))
     (native-inputs
-     `(("java-testng" ,java-testng)
-       ("java-guava" ,java-guava)))
+     (list java-testng java-guava))
     (home-page "http://broadinstitute.github.io/picard/")
     (synopsis "Tools for manipulating high-throughput sequencing data and formats")
     (description "Picard is a set of Java command line tools for manipulating
@@ -4831,7 +4724,7 @@ VCF.")
        ("java-picard-1.113" ,java-picard-1.113)
        ("java-jbzip2" ,java-jbzip2)))
     (native-inputs
-     `(("unzip" ,unzip)))
+     (list unzip))
     (home-page "https://www.bioinformatics.babraham.ac.uk/projects/fastqc/")
     (synopsis "Quality control tool for high throughput sequence data")
     (description
@@ -4880,7 +4773,7 @@ The main functions of FastQC are:
            (lambda* (#:key outputs #:allow-other-keys)
              (mkdir-p (string-append (assoc-ref outputs "out") "/bin")))))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://github.com/OpenGene/fastp/")
     (synopsis "All-in-one FastQ preprocessor")
     (description
@@ -4910,13 +4803,12 @@ performance.")
                            "--enable-libcurl"
                            "--enable-s3")))
     (inputs
-     `(("curl" ,curl)
-       ("openssl" ,openssl)))
+     (list curl openssl))
     ;; This is referred to in the pkg-config file as a required library.
     (propagated-inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (native-inputs
-     `(("perl" ,perl)))
+     (list perl))
     (home-page "https://www.htslib.org")
     (synopsis "C library for reading/writing high-throughput sequencing data")
     (description
@@ -5013,12 +4905,9 @@ data.  It also provides the @command{bgzip}, @command{htsfile}, and
     ;; causes the tests to always fail.
     (arguments `(#:tests? #f))
     (propagated-inputs
-     `(("python-scipy" ,python-scipy)
-       ("python-sympy" ,python-sympy)
-       ("python-numpy" ,python-numpy)
-       ("python-matplotlib" ,python-matplotlib)))
+     (list python-scipy python-sympy python-numpy python-matplotlib))
     (native-inputs
-     `(("python-cython" ,python-cython)))
+     (list python-cython))
     (home-page "https://github.com/nboley/idr")
     (synopsis "Tool to measure the irreproducible discovery rate (IDR)")
     (description
@@ -5059,7 +4948,7 @@ experiments and provide highly stable thresholds based on reproducibility.")
        ("python" ,python-wrapper)
        ("pkg-config" ,pkg-config)))
     (inputs
-     `(("htslib" ,htslib)))
+     (list htslib))
     (synopsis "Tool for fast counting of k-mers in DNA")
     (description
      "Jellyfish is a tool for fast, memory-efficient counting of k-mers in
@@ -5140,15 +5029,9 @@ command, or queried for specific k-mers with @code{jellyfish query}.")
                (add-installed-pythonpath inputs outputs)
                (invoke "pytest" "-v")))))))
     (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-pytest" ,python-pytest)
-       ("python-pytest-runner" ,python-pytest-runner)))
+     (list python-cython python-pytest python-pytest-runner))
     (inputs
-     `(("zlib" ,zlib)
-       ("bzip2" ,bzip2)
-       ("seqan" ,seqan-1)
-       ("python-screed" ,python-screed)
-       ("python-bz2file" ,python-bz2file)))
+     (list zlib bzip2 seqan-1 python-screed python-bz2file))
     (home-page "https://khmer.readthedocs.org/")
     (synopsis "K-mer counting, filtering and graph traversal library")
     (description "The khmer software is a set of command-line tools for
@@ -5190,8 +5073,7 @@ data.")
                (copy-recursively "bin" bin))
              #t)))))
     (inputs
-     `(("perl" ,perl)
-       ("zlib" ,zlib)))
+     (list perl zlib))
     (home-page "http://kaiju.binf.ku.dk/")
     (synopsis "Fast and sensitive taxonomic classification for metagenomics")
     (description "Kaiju is a program for sensitive taxonomic classification
@@ -5236,10 +5118,9 @@ experiments.")
                (add-installed-pythonpath inputs outputs)
                (invoke "pytest" "-v")))))))
     (inputs
-     `(("python-numpy" ,python-numpy)))
+     (list python-numpy))
     (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-pytest" ,python-pytest)))
+     (list python-cython python-pytest))
     (home-page "https://github.com/macs3-project/MACS")
     (synopsis "Model based analysis for ChIP-Seq data")
     (description
@@ -5319,11 +5200,7 @@ sequencing tag position and orientation.")
                              `("PATH" ":" prefix (,path))))
                          (find-files bin))))))))
     (inputs
-     `(("perl" ,perl)
-       ("ruby" ,ruby)
-       ("gawk" ,gawk)
-       ("grep" ,grep)
-       ("coreutils" ,coreutils)))
+     (list perl ruby gawk grep coreutils))
     (home-page "https://mafft.cbrc.jp/alignment/software/")
     (synopsis "Multiple sequence alignment program")
     (description
@@ -5380,14 +5257,14 @@ sequences).")
                (("c\\+\\+11") "c++14"))
              #t)))))
     (native-inputs
-     `(("autoconf" ,autoconf)))
+     (list autoconf))
     (inputs
-     `(;; Capnproto and htslib are statically embedded in the final
-       ;; application. Therefore we also list their licenses, below.
-       ("capnproto" ,capnproto)
-       ("htslib" ,htslib)
-       ("gsl" ,gsl)
-       ("zlib" ,zlib)))
+     (list ;; Capnproto and htslib are statically embedded in the final
+           ;; application. Therefore we also list their licenses, below.
+           capnproto
+           htslib
+           gsl
+           zlib))
     (supported-systems '("x86_64-linux"))
     (home-page "https://mash.readthedocs.io")
     (synopsis "Fast genome and metagenome distance estimation using MinHash")
@@ -5439,11 +5316,7 @@ form of assemblies or reads.")
                (("set\\(Boost.*") "")
                (("add_dependencies.*") "")))))))
     (inputs
-     `(("zlib" ,zlib)
-       ("perl" ,perl)
-       ("samtools" ,samtools)
-       ("htslib" ,htslib)
-       ("boost" ,boost)))
+     (list zlib perl samtools htslib boost))
     (home-page "https://bitbucket.org/berkeleylab/metabat")
     (synopsis
      "Reconstruction of single genomes from complex microbial communities")
@@ -5547,14 +5420,11 @@ linker_so='gcc -shared'); defines")))))
       (inputs
        ;; Samtools must not be newer than 1.2.  See
        ;; https://github.com/yarden/MISO/issues/135
-       `(("samtools" ,samtools-1.2)
-         ("python-numpy" ,python2-numpy)
-         ("python-pysam" ,python2-pysam)
-         ("python-scipy" ,python2-scipy)
-         ("python-matplotlib" ,python2-matplotlib)))
+       (list samtools-1.2 python2-numpy python2-pysam python2-scipy
+             python2-matplotlib))
       (native-inputs
-       `(("python-mock" ,python2-mock)    ; for tests
-         ("python-pytz" ,python2-pytz)))  ; for tests
+       (list python2-mock ; for tests
+             python2-pytz))  ; for tests
       (home-page "https://miso.readthedocs.io/en/fastmiso/")
       (synopsis "Mixture of Isoforms model for RNA-Seq isoform quantitation")
       (description
@@ -5622,13 +5492,9 @@ program for nucleotide and protein sequences.")
       (inputs
        ;; XXX: TODO: Enable Lua and Guile bindings.
        ;; https://github.com/tjunier/newick_utils/issues/13
-       `(("libxml2" ,libxml2)
-         ("flex" ,flex)
-         ("bison" ,bison)))
+       (list libxml2 flex bison))
       (native-inputs
-       `(("autoconf" ,autoconf)
-         ("automake" ,automake)
-         ("libtool" ,libtool)))
+       (list autoconf automake libtool))
       (synopsis "Programs for working with newick format phylogenetic trees")
       (description
        "Newick-utils is a suite of utilities for processing phylogenetic trees
@@ -5650,11 +5516,9 @@ trimming, pruning, condensing, drawing (ASCII graphics or SVG).")
                (base32
                 "16iigyr2gd8x0imzkk1dr3k5xsds9bpmwg31ayvjg0f4pir9rwqr"))))
     (build-system gnu-build-system)
-    (inputs `(("zlib" ,zlib)))
+    (inputs (list zlib))
     (native-inputs
-     `(("ruby-bio-commandeer" ,ruby-bio-commandeer)
-       ("ruby-rspec" ,ruby-rspec)
-       ("ruby" ,ruby)))
+     (list ruby-bio-commandeer ruby-rspec ruby))
     (synopsis "Simple and not slow open reading frame (ORF) caller")
     (description
      "An ORF caller finds stretches of DNA that, when translated, are not
@@ -5685,13 +5549,9 @@ interrupted by stop codons.  OrfM finds and prints these ORFs.")
                         (("^sphinx") ""))
                       #t)))))
     (propagated-inputs
-     `(("python-cython" ,python2-cython)
-       ("python-numpy" ,python2-numpy)
-       ("python-pysam" ,python2-pysam)
-       ("python-h5py" ,python2-h5py)))
+     (list python2-cython python2-numpy python2-pysam python2-h5py))
     (native-inputs
-     `(("python-nose" ,python2-nose)
-       ("python-pyxb" ,python2-pyxb)))
+     (list python2-nose python2-pyxb))
     (home-page "https://pacificbiosciences.github.io/pbcore/")
     (synopsis "Library for reading and writing PacBio data files")
     (description
@@ -5723,17 +5583,15 @@ files and writing bioinformatics applications.")
                 "from scipy import linalg\nimport weave"))
              #t)))))
     (propagated-inputs
-     `(("python-scipy" ,python2-scipy)
-       ("python-numpy" ,python2-numpy)
-       ("python-matplotlib" ,python2-matplotlib)
-       ("python-fastlmm" ,python2-fastlmm)
-       ("python-pandas" ,python2-pandas)
-       ("python-pysnptools" ,python2-pysnptools)
-       ("python-weave" ,python2-weave)))
-    (native-inputs
-     `(("python-mock" ,python2-mock)
-       ("python-nose" ,python2-nose)
-       ("unzip" ,unzip)))
+     (list python2-scipy
+           python2-numpy
+           python2-matplotlib
+           python2-fastlmm
+           python2-pandas
+           python2-pysnptools
+           python2-weave))
+    (native-inputs
+     (list python2-mock python2-nose unzip))
     (home-page "https://github.com/PMBio/warpedLMM")
     (synopsis "Implementation of warped linear mixed models")
     (description
@@ -5781,9 +5639,7 @@ the phenotype as it models the data.")
                  `("PATH" ":" prefix (,path)))
                (install-file "prank.1" man)))))))
     (inputs
-     `(("mafft" ,mafft)
-       ("exonerate" ,exonerate)
-       ("bppsuite" ,bppsuite)))
+     (list mafft exonerate bppsuite))
     (home-page "http://wasabiapp.org/software/prank/")
     (synopsis "Probabilistic multiple sequence alignment program")
     (description
@@ -5855,7 +5711,7 @@ predicts the locations of structural units in the sequences.")
        ("lapack" ,lapack)
        ("openblas" ,openblas)))
     (native-inputs
-     `(("which" ,which)))
+     (list which))
     (home-page "http://www.bioinf.uni-leipzig.de/Software/proteinortho")
     (synopsis "Detect orthologous genes across species")
     (description
@@ -5884,7 +5740,7 @@ large-scale data and can be applied to hundreds of species at once.")
      `(#:python ,python-2 ; does not work with Python 3
        #:tests? #f))      ; there are no tests
     (inputs
-     `(("python2-matplotlib" ,python2-matplotlib)))
+     (list python2-matplotlib))
     (home-page "https://bitbucket.org/regulatorygenomicsupf/pyicoteo")
     (synopsis "Analyze high-throughput genetic sequencing data")
     (description
@@ -6008,10 +5864,7 @@ partial genes, and identifies translation initiation sites.")
                      (,(string-append coreutils-path ":" out "/bin"))))))
              #t)))))
     (native-inputs
-     `(("perl-env-path" ,perl-env-path)
-       ("perl-test-files" ,perl-test-files)
-       ("perl-test-most" ,perl-test-most)
-       ("perl-test-output" ,perl-test-output)))
+     (list perl-env-path perl-test-files perl-test-most perl-test-output))
     (inputs
      `(("perl-array-utils" ,perl-array-utils)
        ("bioperl" ,bioperl-minimal)
@@ -6084,7 +5937,7 @@ extremely diverse sets of genomes.")
                (symlink (string-append bin "/" executable) "raxml"))
              #t)))))
     (inputs
-     `(("openmpi" ,openmpi)))
+     (list openmpi))
     (home-page "https://cme.h-its.org/exelixis/web/software/raxml/index.html")
     (synopsis "Randomized Axelerated Maximum Likelihood phylogenetic trees")
     (description
@@ -6172,11 +6025,7 @@ phylogenies.")
                            "rsem-run-ebseq"
                            "rsem-run-prsem-testing-procedure"))))))))
     (inputs
-     `(("boost" ,boost)
-       ("r-minimal" ,r-minimal)
-       ("perl" ,perl)
-       ("htslib" ,htslib-1.3)
-       ("zlib" ,zlib)))
+     (list boost r-minimal perl htslib-1.3 zlib))
     (home-page "http://deweylab.biostat.wisc.edu/rsem/")
     (synopsis "Estimate gene expression levels from RNA-Seq data")
     (description
@@ -6204,14 +6053,14 @@ BAM and Wiggle files in both transcript-coordinate and genomic-coordinate.")
          "0gbb9iyb7swiv5455fm5rg98r7l6qn27v564yllqjd574hncpx6m"))))
     (build-system python-build-system)
     (inputs
-     `(("python-cython" ,python-cython)
-       ("python-bx-python" ,python-bx-python)
-       ("python-pybigwig" ,python-pybigwig)
-       ("python-pysam" ,python-pysam)
-       ("python-numpy" ,python-numpy)
-       ("zlib" ,zlib)))
+     (list python-cython
+           python-bx-python
+           python-pybigwig
+           python-pysam
+           python-numpy
+           zlib))
     (native-inputs
-     `(("python-nose" ,python-nose)))
+     (list python-nose))
     (home-page "http://rseqc.sourceforge.net/")
     (synopsis "RNA-seq quality control package")
     (description
@@ -6271,7 +6120,7 @@ distribution, coverage uniformity, strand specificity, etc.")
          ("python" ,python)
          ("readline" ,readline)))
       (native-inputs
-       `(("pkg-config" ,pkg-config)))
+       (list pkg-config))
       (home-page "http://seek.princeton.edu")
       (synopsis "Gene co-expression search engine")
       (description
@@ -6329,13 +6178,9 @@ to the user's query of interest.")
                            (install-file file include))
                          (scandir "." (lambda (name) (string-match "\\.h$" name))))
                #t))))))
-    (native-inputs `(("pkg-config" ,pkg-config)))
+    (native-inputs (list pkg-config))
     (inputs
-     `(("htslib" ,htslib)
-       ("ncurses" ,ncurses)
-       ("perl" ,perl)
-       ("python" ,python)
-       ("zlib" ,zlib)))
+     (list htslib ncurses perl python zlib))
     (home-page "http://samtools.sourceforge.net")
     (synopsis "Utilities to efficiently manipulate nucleotide sequence alignments")
     (description
@@ -6364,11 +6209,7 @@ viewer.")
                    (delete-file-recursively "htslib-1.10")
                    #t))))
     (inputs
-     `(("htslib" ,htslib-1.10)
-       ("ncurses" ,ncurses)
-       ("perl" ,perl)
-       ("python" ,python)
-       ("zlib" ,zlib)))))
+     (list htslib-1.10 ncurses perl python zlib))))
 
 (define-public samtools-1.2
   (package (inherit samtools)
@@ -6423,15 +6264,9 @@ viewer.")
                (("P 52.out.*") ""))))
          (delete 'configure))))
     (native-inputs
-     `(("grep" ,grep)
-       ("gawk" ,gawk)
-       ("pkg-config" ,pkg-config)))
+     (list grep gawk pkg-config))
     (inputs
-     `(("htslib" ,htslib-for-samtools-1.2)
-       ("ncurses" ,ncurses)
-       ("perl" ,perl)
-       ("python" ,python)
-       ("zlib" ,zlib)))))
+     (list htslib-for-samtools-1.2 ncurses perl python zlib))))
 
 (define-public samtools-0.1
   ;; This is the most recent version of the 0.1 line of samtools.  The input
@@ -6543,8 +6378,7 @@ Roche 454, Ion Torrent and Pacific BioSciences SMRT.")
                (mkdir-p share)
                (copy-recursively "../R" share)))))))
     (inputs
-     `(("boost" ,boost)
-       ("htslib" ,htslib)))
+     (list boost htslib))
     (home-page "https://github.com/friendsofstrandseq/mosaicatcher")
     (synopsis "Count and classify Strand-seq reads")
     (description
@@ -6586,7 +6420,7 @@ each chromosome in each cell using a Hidden Markov Model.")
                #t)))
          (add-after 'unpack 'enter-dir
            (lambda _ (chdir "ngs-sdk") #t)))))
-    (native-inputs `(("perl" ,perl)))
+    (native-inputs (list perl))
     ;; According to the test
     ;;   unless ($MARCH =~ /x86_64/i || $MARCH =~ /i?86/i)
     ;; in ngs-sdk/setup/konfigure.perl
@@ -6724,7 +6558,7 @@ simultaneously.")
        ("java-ngs" ,java-ngs)
        ("libmagic" ,file)
        ("hdf5" ,hdf5)))
-    (native-inputs `(("perl" ,perl)))
+    (native-inputs (list perl))
     ;; NCBI-VDB requires SSE capability.
     (supported-systems '("i686-linux" "x86_64-linux"))
     (home-page "https://github.com/ncbi/ncbi-vdb")
@@ -6770,10 +6604,9 @@ accessed/downloaded on demand across HTTP.")
                                        "/bin/")))
                (install-file "plink" bin)))))))
     (inputs
-     `(("zlib" ,zlib)
-       ("lapack" ,lapack)))
+     (list zlib lapack))
     (native-inputs
-     `(("unzip" ,unzip)))
+     (list unzip))
     (home-page "http://pngu.mgh.harvard.edu/~purcell/plink/")
     (synopsis "Whole genome association analysis toolset")
     (description
@@ -6830,13 +6663,9 @@ subsequent visualization, annotation and storage of results.")
                  (invoke "bash" "test_setup.sh")
                  (invoke "python3" "tests.py"))))))))
     (inputs
-     `(("lapack" ,lapack)
-       ("openblas" ,openblas)
-       ("zlib" ,zlib)))
+     (list lapack openblas zlib))
     (native-inputs
-     `(("diffutils" ,diffutils)
-       ("plink" ,plink)
-       ("python" ,python))) ; for tests
+     (list diffutils plink python)) ; for tests
     (home-page "https://www.cog-genomics.org/plink/")
     (license license:gpl3+)))
 
@@ -6883,8 +6712,7 @@ subsequent visualization, annotation and storage of results.")
               #t))
            (delete 'configure))))
       (inputs
-       `(("samtools" ,samtools-0.1)
-         ("zlib" ,zlib)))
+       (list samtools-0.1 zlib))
       (home-page "https://github.com/smithlabcode/smithlab_cpp")
       (synopsis "C++ helper library for functions used in Smith lab projects")
       (description
@@ -6924,10 +6752,7 @@ structures, classes for genomic regions, mapped sequencing reads, etc.")
                 "PROGS=preseq"
                 "INCLUDEDIRS=$(SMITHLAB_CPP)/../include/smithlab-cpp $(SAMTOOLS_DIR)")))
     (inputs
-     `(("gsl" ,gsl)
-       ("samtools" ,samtools-0.1)
-       ("smithlab-cpp" ,smithlab-cpp)
-       ("zlib" ,zlib)))
+     (list gsl samtools-0.1 smithlab-cpp zlib))
     (home-page "http://smithlabresearch.org/software/preseq/")
     (synopsis "Program for analyzing library complexity")
     (description
@@ -6953,11 +6778,9 @@ complexity samples.")
          "148vcb7w2wr6a4w6vs2bsxanbqibxfk490zbcbg4m61s8669zdjx"))))
     (build-system python-build-system)
     (native-inputs
-     `(("python-pytest" ,python-pytest)
-       ("python-pytest-cov" ,python-pytest-cov)
-       ("python-pytest-runner" ,python-pytest-runner)))
+     (list python-pytest python-pytest-cov python-pytest-runner))
     (inputs
-     `(("python-bz2file" ,python-bz2file)))
+     (list python-bz2file))
     (home-page "https://github.com/dib-lab/screed/")
     (synopsis "Short read sequence database utilities")
     (description "Screed parses FASTA and FASTQ files and generates databases.
@@ -7055,7 +6878,7 @@ sequence itself can be retrieved from these databases.")
                      (string-append "--with-hdf5-prefix="
                                     (assoc-ref inputs "hdf5")))
              #t)))))
-    (native-inputs `(("perl" ,perl)))
+    (native-inputs (list perl))
     (inputs
      `(("ngs-sdk" ,ngs-sdk)
        ("ncbi-vdb" ,ncbi-vdb)
@@ -7093,9 +6916,7 @@ writing files into the .sra format.")
            (lambda _
              (invoke "ctest" "test" "--output-on-failure"))))))
     (native-inputs
-     `(("bzip2" ,bzip2)
-       ("cereal" ,cereal)
-       ("zlib" ,zlib)))
+     (list bzip2 cereal zlib))
     (home-page "https://www.seqan.de")
     (synopsis "Library for nucleotide sequence analysis")
     (description
@@ -7188,9 +7009,9 @@ bioinformatics file formats, sequence alignment, and more.")
          "0pf98da7i59q47gwrbx0wjk6xlvbybiwphw80w7h4ydjj0579a2b"))))
     (build-system python-build-system)
     (inputs
-     `(("python-biopython" ,python-biopython)))
+     (list python-biopython))
     (native-inputs
-     `(("python-nose" ,python-nose)))
+     (list python-nose))
     (home-page "https://github.com/fhcrc/seqmagick")
     (synopsis "Tools for converting and modifying sequence files")
     (description
@@ -7228,7 +7049,7 @@ is one that takes arguments.")
                (install-file "seqtk" bin)
                #t))))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://github.com/lh3/seqtk")
     (synopsis "Toolkit for processing biological sequences in FASTA/Q format")
     (description
@@ -7265,7 +7086,7 @@ optionally compressed by gzip.")
                (install-file "snap-aligner" bin)
                (install-file "SNAPCommand" bin)))))))
     (native-inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "http://snap.cs.berkeley.edu/")
     (synopsis "Short read DNA sequence aligner")
     (description
@@ -7313,7 +7134,7 @@ of these reads to align data quickly through a hash-based indexing scheme.")
                          (find-files "rRNA_databases" ".*fasta"))
                #t))))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://bioinfo.lifl.fr/RNA/sortmerna/")
     (synopsis "Biological sequence analysis tool for NGS reads")
     (description
@@ -7395,10 +7216,9 @@ application of SortMeRNA is filtering rRNA from metatranscriptomic data.")
              #t))
          (delete 'configure))))
     (native-inputs
-     `(("xxd" ,xxd)))
+     (list xxd))
     (inputs
-     `(("htslib" ,htslib)
-       ("zlib" ,zlib)))
+     (list htslib zlib))
     (home-page "https://github.com/alexdobin/STAR")
     (synopsis "Universal RNA-seq aligner")
     (description
@@ -7505,7 +7325,7 @@ sequences.")
                (copy-recursively "../bin" bin))))
          ;; no "configure" script
          (delete 'configure))))
-    (inputs `(("zlib" ,zlib)))
+    (inputs (list zlib))
     (home-page "http://subread.sourceforge.net/")
     (synopsis "Tool kit for processing next-gen sequencing data")
     (description
@@ -7562,8 +7382,7 @@ against local background noises.")
               (install-file "stringtie" bin)
               #t))))))
     (inputs
-     `(("samtools" ,samtools-0.1)
-       ("zlib" ,zlib)))
+     (list samtools-0.1 zlib))
     (home-page "http://ccb.jhu.edu/software/stringtie/")
     (synopsis "Transcript assembly and quantification for RNA-Seq data")
     (description
@@ -7617,16 +7436,16 @@ Cuffdiff or Ballgown programs.")
          ;; available.
          (delete 'sanity-check))))
     (propagated-inputs
-     `(("python-sqlalchemy" ,python-sqlalchemy)
-       ("python-decorator" ,python-decorator)
-       ("python-biopython" ,python-biopython)
-       ("python-pandas" ,python-pandas)
-       ("python-psycopg2" ,python-psycopg2)
-       ("python-fastalite" ,python-fastalite)
-       ("python-pyyaml" ,python-pyyaml)
-       ("python-six" ,python-six)
-       ("python-jinja2" ,python-jinja2)
-       ("python-dendropy" ,python-dendropy)))
+     (list python-sqlalchemy
+           python-decorator
+           python-biopython
+           python-pandas
+           python-psycopg2
+           python-fastalite
+           python-pyyaml
+           python-six
+           python-jinja2
+           python-dendropy))
     (home-page "https://github.com/fhcrc/taxtastic")
     (synopsis "Tools for taxonomic naming and annotation")
     (description
@@ -7656,10 +7475,9 @@ profiles, and associated taxonomic information.")
            (string-append "PREFIX=" #$output)
            (string-append "MANDIR=" #$output "/share/man/man1"))))
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     (list pkg-config))
     (inputs
-     `(("perl" ,perl)
-       ("zlib" ,zlib)))
+     (list perl zlib))
     (home-page "https://vcftools.github.io/")
     (synopsis "Tools for working with VCF files")
     (description
@@ -7684,8 +7502,7 @@ data in the form of VCF files.")
                 "1z4mgwqg1j4n5ika08ai8mg9yjyjhf4821jp83v2bgwzxrykqjgr"))))
     (build-system gnu-build-system)
     (native-inputs
-     `(("perl" ,perl)
-       ("python" ,python))) ; for tests
+     (list perl python)) ; for tests
     (home-page "http://eddylab.org/infernal/")
     (synopsis "Inference of RNA alignments")
     (description "Infernal (\"INFERence of RNA ALignment\") is a tool for
@@ -7718,15 +7535,15 @@ sequence.")
       (properties `((upstream . "presto")))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-data-table" ,r-data-table)
-         ("r-deseq2" ,r-deseq2)
-         ("r-dplyr" ,r-dplyr)
-         ("r-matrix" ,r-matrix)
-         ("r-rcpp" ,r-rcpp)
-         ("r-rcpparmadillo" ,r-rcpparmadillo)
-         ("r-reshape2" ,r-reshape2)
-         ("r-rlang" ,r-rlang)
-         ("r-tidyr" ,r-tidyr)))
+       (list r-data-table
+             r-deseq2
+             r-dplyr
+             r-matrix
+             r-rcpp
+             r-rcpparmadillo
+             r-reshape2
+             r-rlang
+             r-tidyr))
       (home-page "https://github.com/immunogenomics/presto")
       (synopsis "Fast Functions for Differential Expression using Wilcox and AUC")
       (description "This package performs a fast Wilcoxon rank sum test and
@@ -7749,25 +7566,25 @@ auROC analysis.")
     (properties `((upstream-name . "SnapATAC")))
     (build-system r-build-system)
     (propagated-inputs
-      `(("r-bigmemory" ,r-bigmemory)
-        ("r-doparallel" ,r-doparallel)
-        ("r-dosnow" ,r-dosnow)
-        ("r-edger" ,r-edger)
-        ("r-foreach" ,r-foreach)
-        ("r-genomicranges" ,r-genomicranges)
-        ("r-igraph" ,r-igraph)
-        ("r-iranges" ,r-iranges)
-        ("r-irlba" ,r-irlba)
-        ("r-matrix" ,r-matrix)
-        ("r-plyr" ,r-plyr)
-        ("r-plot3d" ,r-plot3d)
-        ("r-rann" ,r-rann)
-        ("r-raster" ,r-raster)
-        ("r-rcolorbrewer" ,r-rcolorbrewer)
-        ("r-rhdf5" ,r-rhdf5)
-        ("r-rtsne" ,r-rtsne)
-        ("r-scales" ,r-scales)
-        ("r-viridis" ,r-viridis)))
+      (list r-bigmemory
+            r-doparallel
+            r-dosnow
+            r-edger
+            r-foreach
+            r-genomicranges
+            r-igraph
+            r-iranges
+            r-irlba
+            r-matrix
+            r-plyr
+            r-plot3d
+            r-rann
+            r-raster
+            r-rcolorbrewer
+            r-rhdf5
+            r-rtsne
+            r-scales
+            r-viridis))
     (home-page "https://github.com/r3fang/SnapATAC")
     (synopsis "Single nucleus analysis package for ATAC-Seq")
     (description
@@ -7812,12 +7629,10 @@ single cell ATAC-seq sequencing data.")
                  (("\"perl")
                   (string-append "\"" (which "perl")))))))))
       (inputs
-       `(("perl" ,perl)
-         ("bowtie" ,bowtie)))
+       (list perl bowtie))
       (propagated-inputs
-       `(("r-misha" ,r-misha)
-         ("r-zoo" ,r-zoo)))
-      (native-inputs `(("r-knitr" ,r-knitr)))
+       (list r-misha r-zoo))
+      (native-inputs (list r-knitr))
       (home-page "https://github.com/tanaylab/umi4cpackage")
       (synopsis "Processing and analysis of UMI-4C contact profiles")
       (description "This is a package that lets you process UMI-4C data from
@@ -7844,16 +7659,16 @@ scratch to produce nice plots.")
       (properties `((upstream-name . "ShinyCell")))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-data-table" ,r-data-table)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-glue" ,r-glue)
-         ("r-gridextra" ,r-gridextra)
-         ("r-hdf5r" ,r-hdf5r)
-         ("r-matrix" ,r-matrix)
-         ("r-r-utils" ,r-r-utils)
-         ("r-rcolorbrewer" ,r-rcolorbrewer)
-         ("r-readr" ,r-readr)
-         ("r-reticulate" ,r-reticulate)))
+       (list r-data-table
+             r-ggplot2
+             r-glue
+             r-gridextra
+             r-hdf5r
+             r-matrix
+             r-r-utils
+             r-rcolorbrewer
+             r-readr
+             r-reticulate))
       (home-page "https://github.com/SGDDNB/ShinyCell")
       (synopsis "Shiny interactive web apps for single-cell data")
       (description
@@ -7880,30 +7695,30 @@ single-cell data.")
       (properties `((upstream-name . "ArchR")))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-biocgenerics" ,r-biocgenerics)
-         ("r-biostrings" ,r-biostrings)
-         ("r-chromvar" ,r-chromvar)
-         ("r-complexheatmap" ,r-complexheatmap)
-         ("r-data-table" ,r-data-table)
-         ("r-genomicranges" ,r-genomicranges)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-ggrepel" ,r-ggrepel)
-         ("r-gridextra" ,r-gridextra)
-         ("r-gtable" ,r-gtable)
-         ("r-gtools" ,r-gtools)
-         ("r-magrittr" ,r-magrittr)
-         ("r-matrix" ,r-matrix)
-         ("r-matrixstats" ,r-matrixstats)
-         ("r-motifmatchr" ,r-motifmatchr)
-         ("r-nabor" ,r-nabor)
-         ("r-plyr" ,r-plyr)
-         ("r-rcpp" ,r-rcpp)
-         ("r-rhdf5" ,r-rhdf5)
-         ("r-rsamtools" ,r-rsamtools)
-         ("r-s4vectors" ,r-s4vectors)
-         ("r-stringr" ,r-stringr)
-         ("r-summarizedexperiment" ,r-summarizedexperiment)
-         ("r-uwot" ,r-uwot)))
+       (list r-biocgenerics
+             r-biostrings
+             r-chromvar
+             r-complexheatmap
+             r-data-table
+             r-genomicranges
+             r-ggplot2
+             r-ggrepel
+             r-gridextra
+             r-gtable
+             r-gtools
+             r-magrittr
+             r-matrix
+             r-matrixstats
+             r-motifmatchr
+             r-nabor
+             r-plyr
+             r-rcpp
+             r-rhdf5
+             r-rsamtools
+             r-s4vectors
+             r-stringr
+             r-summarizedexperiment
+             r-uwot))
       (home-page "https://github.com/GreenleafLab/ArchR")
       (synopsis "Analyze single-cell regulatory chromatin in R")
       (description
@@ -7925,21 +7740,21 @@ single-cell data.")
                 "10na2gyka24mszdxf92wz9h2c13hdf1ww30c68gfsw53lvvhhhxb"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-rcpp" ,r-rcpp)
-       ("r-rcpparmadillo" ,r-rcpparmadillo)
-       ("r-mgcv" ,r-mgcv)
-       ("r-rook" ,r-rook)
-       ("r-rjson" ,r-rjson)
-       ("r-cairo" ,r-cairo)
-       ("r-rcolorbrewer" ,r-rcolorbrewer)
-       ("r-edger" ,r-edger)
-       ("r-quantreg" ,r-quantreg)
-       ("r-nnet" ,r-nnet)
-       ("r-rmtstat" ,r-rmtstat)
-       ("r-extremes" ,r-extremes)
-       ("r-pcamethods" ,r-pcamethods)
-       ("r-biocparallel" ,r-biocparallel)
-       ("r-flexmix" ,r-flexmix)))
+     (list r-rcpp
+           r-rcpparmadillo
+           r-mgcv
+           r-rook
+           r-rjson
+           r-cairo
+           r-rcolorbrewer
+           r-edger
+           r-quantreg
+           r-nnet
+           r-rmtstat
+           r-extremes
+           r-pcamethods
+           r-biocparallel
+           r-flexmix))
     (home-page "https://hms-dbmi.github.io/scde/")
     (synopsis "R package for analyzing single-cell RNA-seq data")
     (description "The SCDE package implements a set of statistical methods for
@@ -7981,7 +7796,7 @@ of transcriptional heterogeneity among single cells.")
                                (assoc-ref inputs "kentutils")
                                "/bin/bigWigToWig"))))))))
     (inputs
-     `(("kentutils" ,kentutils)))
+     (list kentutils))
     (home-page "https://github.com/tanaylab/misha")
     (synopsis "Toolkit for analysis of genomic data")
     (description "This package is intended to help users to efficiently
@@ -8009,18 +7824,18 @@ analyze genomic data resulting from various experiments.")
                  '(delete-file "inst/doc/shaman-package.R"))))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-data-table" ,r-data-table)
-         ("r-domc" ,r-domc)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-gviz" ,r-gviz)
-         ("r-misha" ,r-misha)
-         ("r-plyr" ,r-plyr)
-         ("r-rann" ,r-rann)
-         ("r-rcpp" ,r-rcpp)
-         ("r-reshape2" ,r-reshape2)
-         ;; For vignettes
-         ("r-rmarkdown" ,r-rmarkdown)
-         ("r-knitr" ,r-knitr)))
+       (list r-data-table
+             r-domc
+             r-ggplot2
+             r-gviz
+             r-misha
+             r-plyr
+             r-rann
+             r-rcpp
+             r-reshape2
+             ;; For vignettes
+             r-rmarkdown
+             r-knitr))
       (home-page "https://github.com/tanaylab/shaman")
       (synopsis "Sampling HiC contact matrices for a-parametric normalization")
       (description "The Shaman package implements functions for
@@ -8075,11 +7890,7 @@ information as possible.")
       (properties `((upstream-name . "deMULTIplex")))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-kernsmooth" ,r-kernsmooth)
-         ("r-reshape2" ,r-reshape2)
-         ("r-rtsne" ,r-rtsne)
-         ("r-shortread" ,r-shortread)
-         ("r-stringdist" ,r-stringdist)))
+       (list r-kernsmooth r-reshape2 r-rtsne r-shortread r-stringdist))
       (home-page "https://github.com/chris-mcginnis-ucsf/MULTI-seq")
       (synopsis "MULTI-seq pre-processing and classification tools")
       (description
@@ -8118,17 +7929,17 @@ includes software to
              (substitute* "requirements.txt"
                (("==") ">=")))))))
     (inputs
-     `(("python-cryptography" ,python-cryptography)
-       ("python-intervaltree" ,python-intervaltree)
-       ("python-jsonschema" ,python-jsonschema)
-       ("python-lxml" ,python-lxml)
-       ("python-ndg-httpsclient" ,python-ndg-httpsclient)
-       ("python-progressbar2" ,python-progressbar2)
-       ("python-pyasn1" ,python-pyasn1)
-       ("python-pyopenssl" ,python-pyopenssl)
-       ("python-pyyaml" ,python-pyyaml)
-       ("python-requests" ,python-requests)
-       ("python-termcolor" ,python-termcolor)))
+     (list python-cryptography
+           python-intervaltree
+           python-jsonschema
+           python-lxml
+           python-ndg-httpsclient
+           python-progressbar2
+           python-pyasn1
+           python-pyopenssl
+           python-pyyaml
+           python-requests
+           python-termcolor))
     (home-page "https://gdc.nci.nih.gov/access-data/gdc-data-transfer-tool")
     (synopsis "GDC data transfer tool")
     (description "The gdc-client provides several convenience functions over
@@ -8160,12 +7971,9 @@ the GDC API which provides general download/upload via HTTPS.")
            #t))))
     (build-system gnu-build-system)
     (inputs
-     `(("zlib" ,zlib)
-       ("bzip2" ,bzip2)
-       ("cityhash" ,cityhash)))
+     (list zlib bzip2 cityhash))
     (native-inputs
-     `(("autoconf" ,autoconf)
-       ("automake" ,automake)))
+     (list autoconf automake))
     (synopsis "Sequence search tools for metagenomics")
     (description
      "VSEARCH supports DNA sequence searching, clustering, chimera detection,
@@ -8204,8 +8012,7 @@ Needleman-Wunsch).")
              (let ((bin (string-append (assoc-ref outputs "out") "/bin")))
                (install-file "ParDRe" bin)))))))
     (inputs
-     `(("openmpi-c++" ,openmpi-c++)
-       ("zlib" ,zlib)))
+     (list openmpi-c++ zlib))
     (synopsis "Parallel tool to remove duplicate DNA reads")
     (description
      "ParDRe is a parallel tool to remove duplicate genetic sequence reads.
@@ -8236,7 +8043,7 @@ clusters.")
     (build-system cmake-build-system)
     (arguments '(#:tests? #false))      ; there are none
     (inputs
-     `(("boost" ,boost)))
+     (list boost))
     (home-page "https://github.com/cbg-ethz/ngshmmalign/")
     (synopsis "Profile HMM aligner for NGS reads")
     (description
@@ -8282,14 +8089,14 @@ experience substantial biological insertions and deletions.")
                                           (,(getenv "PERL5LIB")))))
                          scripts)))))))
     (inputs
-     `(("guile" ,guile-3.0)             ; for wrapper scripts
-       ("perl" ,perl)
-       ("perl-cairo" ,perl-cairo)
-       ("perl-data-dumper" ,perl-data-dumper)
-       ("perl-digest-md5" ,perl-digest-md5)
-       ("perl-getopt-long" ,perl-getopt-long)
-       ("perl-json" ,perl-json)
-       ("perl-statistics-pca" ,perl-statistics-pca)))
+     (list guile-3.0 ; for wrapper scripts
+           perl
+           perl-cairo
+           perl-data-dumper
+           perl-digest-md5
+           perl-getopt-long
+           perl-json
+           perl-statistics-pca))
     (home-page "http://prinseq.sourceforge.net/")
     (synopsis "Preprocess sequence data in FASTA or FASTQ formats")
     (description
@@ -8340,14 +8147,14 @@ data.  It also generates basic statistics for your sequences.")
              (when tests?
                (invoke "make" "check")))))))
     (inputs
-     `(("boost" ,boost)
-       ("htslib" ,htslib)
-       ("python" ,python)
-       ("python-biopython" ,python-biopython)
-       ("python-numpy" ,python-numpy)
-       ("zlib" ,zlib)))
+     (list boost
+           htslib
+           python
+           python-biopython
+           python-numpy
+           zlib))
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     (list pkg-config))
     (home-page "")
     (synopsis "Short reads assembly into haplotypes")
     (description
@@ -8372,11 +8179,9 @@ frequency of the different genetic variants present in a mixed sample.")
     (arguments
      `(#:test-target "spec"))
     (native-inputs
-     `(("bundler" ,bundler)
-       ("ruby-rspec" ,ruby-rspec)
-       ("ruby-rake-compiler" ,ruby-rake-compiler)))
+     (list bundler ruby-rspec ruby-rake-compiler))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (synopsis "Ruby bindings for the kseq.h FASTA/Q parser")
     (description
      "@code{Bio::Kseq} provides ruby bindings to the @code{kseq.h} FASTA and
@@ -8398,7 +8203,7 @@ quality scores.")
          "02vmrxyimkj9sahsp4zhfhnmbvz6dbbqz1y01vglf8cbwvkajfl0"))))
     (build-system ruby-build-system)
     (native-inputs
-     `(("ruby-rspec" ,ruby-rspec)))
+     (list ruby-rspec))
     (synopsis "Tool for fast querying of genome locations")
     (description
      "Bio-locus is a tabix-like tool for fast querying of genome
@@ -8421,10 +8226,9 @@ chr+pos+alt information in a database.")
                 "1wf4qygcmdjgcqm6flmvsagfr1gs9lf63mj32qv3z1f481zc5692"))))
     (build-system ruby-build-system)
     (propagated-inputs
-     `(("ruby-bio-logger" ,ruby-bio-logger)
-       ("ruby-nokogiri" ,ruby-nokogiri)))
+     (list ruby-bio-logger ruby-nokogiri))
     (inputs
-     `(("ruby-rspec" ,ruby-rspec)))
+     (list ruby-rspec))
     (synopsis "Fast big data BLAST XML parser and library")
     (description
      "Very fast parallel big-data BLAST XML file parser which can be used as
@@ -8446,9 +8250,9 @@ generate FASTA, JSON, YAML, RDF, JSON-LD, HTML, CSV, tabular output etc.")
          "1d56amdsjv1mag7m6gv2w0xij8hqx1v5xbdjsix8sp3yp36m7938"))))
     (build-system ruby-build-system)
     (propagated-inputs
-     `(("ruby-libxml" ,ruby-libxml)))
+     (list ruby-libxml))
     (native-inputs
-     `(("which" ,which)))  ; required for test phase
+     (list which))  ; required for test phase
     (arguments
      `(#:phases
        (modify-phases %standard-phases
@@ -8489,7 +8293,7 @@ BLAST, KEGG, GenBank, MEDLINE and GO.")
           "1glw5pn9s8z13spxk6yyfqaz80n9lga67f33w35nkpq9dwi2vg6g"))))
     (build-system ruby-build-system)
     (native-inputs
-     `(("ruby-cucumber" ,ruby-cucumber)))
+     (list ruby-cucumber))
     (synopsis "Smart VCF parser DSL")
     (description
      "Bio-vcf provides a @acronym{DSL, domain specific language} for processing
@@ -8532,16 +8336,16 @@ including VCF header and contents in RDF and JSON.")
       (inputs
        `(("r" ,r-minimal)))
       (propagated-inputs
-       `(("r-catools" ,r-catools)
-         ("r-snow" ,r-snow)
-         ("r-snowfall" ,r-snowfall)
-         ("r-bitops" ,r-bitops)
-         ("r-rsamtools" ,r-rsamtools)
-         ("r-spp" ,r-spp)
-         ("gawk" ,gawk)
-         ("samtools" ,samtools)
-         ("boost" ,boost)
-         ("gzip" ,gzip)))
+       (list r-catools
+             r-snow
+             r-snowfall
+             r-bitops
+             r-rsamtools
+             r-spp
+             gawk
+             samtools
+             boost
+             gzip))
       (home-page "https://github.com/kundajelab/phantompeakqualtools")
       (synopsis "Informative enrichment for ChIP-seq data")
       (description "This package computes informative enrichment and quality
@@ -8564,8 +8368,7 @@ characteristic tag shift values in these assays.")
          "1p0i78wh76jfgmn9jphbwwaz6yy6pipzfg08xs54cxavxg2j81p5"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-optparse" ,r-optparse)
-       ("r-rcolorbrewer" ,r-rcolorbrewer)))
+     (list r-optparse r-rcolorbrewer))
     (home-page "https://www.e-rna.org/r-chie/index.cgi")
     (synopsis "Analysis framework for RNA secondary structure")
     (description
@@ -8617,7 +8420,7 @@ secondary structure and comparative analysis in R.")
        ("guile-json" ,guile-json-1)
        ("guile-redis" ,guile2.2-redis)))
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     (list pkg-config))
     (home-page "https://github.com/BIMSBbioinfo/rcas-web")
     (synopsis "Web interface for RNA-centric annotation system (RCAS)")
     (description "This package provides a simple web interface for the
@@ -8642,16 +8445,16 @@ secondary structure and comparative analysis in R.")
            "14bj5qhjm1hsm9ay561nfbqi9wxsa7y487df2idsaaf6z10nw4v0"))))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-iranges" ,r-iranges)
-         ("r-xvector" ,r-xvector)
-         ("r-biostrings" ,r-biostrings)
-         ("r-bsgenome" ,r-bsgenome)
-         ("r-gtools" ,r-gtools)
-         ("r-genomicranges" ,r-genomicranges)
-         ("r-sfsmisc" ,r-sfsmisc)
-         ("r-kernlab" ,r-kernlab)
-         ("r-s4vectors" ,r-s4vectors)
-         ("r-biocgenerics" ,r-biocgenerics)))
+       (list r-iranges
+             r-xvector
+             r-biostrings
+             r-bsgenome
+             r-gtools
+             r-genomicranges
+             r-sfsmisc
+             r-kernlab
+             r-s4vectors
+             r-biocgenerics))
       (home-page "https://github.com/ManuSetty/ChIPKernels")
       (synopsis "Build string kernels for DNA Sequence analysis")
       (description "ChIPKernels is an R package for building different string
@@ -8676,12 +8479,12 @@ Sequences.")
          "1r6ywvhxl3ffv48lgj7sbd582mcc6dha3ksgc2qjlvjrnkbj3799"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-biostrings" ,r-biostrings)
-       ("r-chipkernels" ,r-chipkernels)
-       ("r-genomicranges" ,r-genomicranges)
-       ("r-spams" ,r-spams)
-       ("r-wgcna" ,r-wgcna)
-       ("r-fastcluster" ,r-fastcluster)))
+     (list r-biostrings
+           r-chipkernels
+           r-genomicranges
+           r-spams
+           r-wgcna
+           r-fastcluster))
     (home-page "https://github.com/ManuSetty/SeqGL")
     (synopsis "Group lasso for Dnase/ChIP-seq data")
     (description "SeqGL is a group lasso based algorithm to extract
@@ -8731,17 +8534,14 @@ AM_CONDITIONAL(AMPNG, true)"))
          (add-after 'disable-update-check 'autogen
            (lambda _ (invoke "autoreconf" "-vif") #t)))))
     (inputs
-     `(("perl" ,perl)
-       ("libpng" ,libpng)
-       ("gd" ,gd)
-       ("libx11" ,libx11)
-       ("libharu" ,libharu)
-       ("zlib" ,zlib)))
+     (list perl
+           libpng
+           gd
+           libx11
+           libharu
+           zlib))
     (native-inputs
-     `(("autoconf" ,autoconf)
-       ("automake" ,automake)
-       ("libtool" ,libtool)
-       ("pkg-config" ,pkg-config)))
+     (list autoconf automake libtool pkg-config))
     (home-page "http://emboss.sourceforge.net")
     (synopsis "Molecular biology analysis suite")
     (description "EMBOSS is the \"European Molecular Biology Open Software
@@ -8789,8 +8589,7 @@ tools for sequence analysis into a seamless whole.")
                 "bin" (string-append (assoc-ref outputs "out") "/bin"))
                #t)))))
       (inputs
-       `(("gsl" ,gsl)
-         ("zlib" ,zlib)))
+       (list gsl zlib))
       (home-page "https://github.com/arq5x/bits")
       (synopsis "Implementation of binary interval search algorithm")
       (description "This package provides an implementation of the
@@ -8880,9 +8679,7 @@ may optionally be provided to further inform the peak-calling process.")
      `(#:python ,python-2 ; python2 only
        #:tests? #f)) ; no tests included
     (propagated-inputs
-     `(("python2-numpy" ,python2-numpy)
-       ("python2-scipy" ,python2-scipy)
-       ("python2-pysam" ,python2-pysam)))
+     (list python2-numpy python2-scipy python2-pysam))
     (home-page "https://github.com/shawnzhangyx/PePr")
     (synopsis "Peak-calling and prioritization pipeline for ChIP-Seq data")
     (description
@@ -8957,20 +8754,20 @@ replacement for strverscmp.")
          ;; reasons.
          (delete 'sanity-check))))
     (propagated-inputs
-     `(("python-click" ,python-click)
-       ("python-coloredlogs" ,python-coloredlogs)
-       ("python-future" ,python-future)
-       ("python-jinja2" ,python-jinja2)
-       ("python-lzstring" ,python-lzstring)
-       ("python-markdown" ,python-markdown)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-networkx" ,python-networkx)
-       ("python-numpy" ,python-numpy)
-       ("python-pyyaml" ,python-pyyaml)
-       ("python-requests" ,python-requests)
-       ("python-rich" ,python-rich)
-       ("python-simplejson" ,python-simplejson)
-       ("python-spectra" ,python-spectra)))
+     (list python-click
+           python-coloredlogs
+           python-future
+           python-jinja2
+           python-lzstring
+           python-markdown
+           python-matplotlib
+           python-networkx
+           python-numpy
+           python-pyyaml
+           python-requests
+           python-rich
+           python-simplejson
+           python-spectra))
     (native-inputs
      `(("python-pytest" ,python-pytest)
        ("tests"
@@ -9009,19 +8806,16 @@ common bioinformatics tools.")
          "12ibdmksj7icyqhks4xyvd61bygk4pjmxn618kp6vgk1af01y34g"))))
     (build-system python-build-system)
     (inputs
-     `(("boost" ,boost)
-       ("c-blosc" ,c-blosc)
-       ("gsl" ,gsl)
-       ("hdf5" ,hdf5)
-       ("hdf5-blosc" ,hdf5-blosc)
-       ("python-cython" ,python-cython)
-       ("zlib" ,zlib)))
+     (list boost
+           c-blosc
+           gsl
+           hdf5
+           hdf5-blosc
+           python-cython
+           zlib))
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)
-       ("python-pycurl" ,python-pycurl)
-       ("python-pyzmq" ,python-pyzmq)
-       ("python-scipy" ,python-scipy)
-       ("python-tables" ,python-tables)))
+     (list python-numpy python-pycurl python-pyzmq python-scipy
+           python-tables))
     (home-page "https://vatlab.github.io/vat-docs/")
     (synopsis "Analyze genetic variants from Next-Gen sequencing studies")
     (description
@@ -9047,11 +8841,7 @@ manipulate and analyze genetic variants.")
     (properties `((upstream-name . "RareMETALS2")))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-seqminer" ,r-seqminer)
-       ("r-mvtnorm" ,r-mvtnorm)
-       ("r-mass" ,r-mass)
-       ("r-compquadform" ,r-compquadform)
-       ("r-getopt" ,r-getopt)))
+     (list r-seqminer r-mvtnorm r-mass r-compquadform r-getopt))
     (home-page "http://genome.sph.umich.edu/wiki/RareMETALS2")
     (synopsis "Analyze gene-level association tests for binary trait")
     (description
@@ -9082,11 +8872,7 @@ trait.")
            "0sbzma49aiiyw8b0jpr7fnhzys9nsqmp4hy4hdz1gzyg1lhnca26"))))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-ggplot2" ,r-ggplot2)
-         ("r-rcolorbrewer" ,r-rcolorbrewer)
-         ("r-gridextra" ,r-gridextra)
-         ("r-gplots" ,r-gplots)
-         ("r-plyr" ,r-plyr)))
+       (list r-ggplot2 r-rcolorbrewer r-gridextra r-gplots r-plyr))
       (home-page "https://github.com/rajewsky-lab/dropbead")
       (synopsis "Basic exploration and analysis of Drop-seq data")
       (description "This package offers a quick and straight-forward way to
@@ -9118,41 +8904,41 @@ droplet sequencing.  It has been particularly tailored for Drop-seq.")
       (properties `((upstream-name . "CellChat")))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-biocgenerics" ,r-biocgenerics)
-         ("r-circlize" ,r-circlize)
-         ("r-colorspace" ,r-colorspace)
-         ("r-complexheatmap" ,r-complexheatmap)
-         ("r-cowplot" ,r-cowplot)
-         ("r-dplyr" ,r-dplyr)
-         ("r-expm" ,r-expm)
-         ("r-fnn" ,r-fnn)
-         ("r-forcats" ,r-forcats)
-         ("r-future" ,r-future)
-         ("r-future-apply" ,r-future-apply)
-         ("r-gg-gap" ,r-gg-gap)
-         ("r-ggalluvial" ,r-ggalluvial)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-ggrepel" ,r-ggrepel)
-         ("r-igraph" ,r-igraph)
-         ("r-irlba" ,r-irlba)
-         ("r-magrittr" ,r-magrittr)
-         ("r-matrix" ,r-matrix)
-         ("r-nmf" ,r-nmf)
-         ("r-patchwork" ,r-patchwork)
-         ("r-pbapply" ,r-pbapply)
-         ("r-rcolorbrewer" ,r-rcolorbrewer)
-         ("r-rcpp" ,r-rcpp)
-         ("r-rcppeigen" ,r-rcppeigen)
-         ("r-reshape2" ,r-reshape2)
-         ("r-reticulate" ,r-reticulate)
-         ("r-rspectra" ,r-rspectra)
-         ("r-rtsne" ,r-rtsne)
-         ("r-scales" ,r-scales)
-         ("r-shape" ,r-shape)
-         ("r-sna" ,r-sna)
-         ("r-stringr" ,r-stringr)
-         ("r-svglite" ,r-svglite)))
-      (native-inputs `(("r-knitr" ,r-knitr)))
+       (list r-biocgenerics
+             r-circlize
+             r-colorspace
+             r-complexheatmap
+             r-cowplot
+             r-dplyr
+             r-expm
+             r-fnn
+             r-forcats
+             r-future
+             r-future-apply
+             r-gg-gap
+             r-ggalluvial
+             r-ggplot2
+             r-ggrepel
+             r-igraph
+             r-irlba
+             r-magrittr
+             r-matrix
+             r-nmf
+             r-patchwork
+             r-pbapply
+             r-rcolorbrewer
+             r-rcpp
+             r-rcppeigen
+             r-reshape2
+             r-reticulate
+             r-rspectra
+             r-rtsne
+             r-scales
+             r-shape
+             r-sna
+             r-stringr
+             r-svglite))
+      (native-inputs (list r-knitr))
       (home-page "https://github.com/sqjin/CellChat")
       (synopsis "Analysis of cell-cell communication from single-cell transcriptomics data")
       (description
@@ -9198,11 +8984,9 @@ communication networks from scRNA-seq data.")
                (copy-file (string-append "bin/sambamba-" ,version)
                           (string-append bin "/sambamba"))))))))
     (native-inputs
-     `(("python" ,python)))
+     (list python))
     (inputs
-     `(("ldc" ,ldc)
-       ("lz4" ,lz4)
-       ("zlib" ,zlib)))
+     (list ldc lz4 zlib))
     (home-page "https://github.com/biod/sambamba")
     (synopsis "Tools for working with SAM/BAM data")
     (description "Sambamba is a high performance modern robust and
@@ -9245,10 +9029,7 @@ sort, markdup, and depth.")
                (install-file "bin/Ritornello" bin)
                #t))))))
     (inputs
-     `(("samtools" ,samtools-0.1)
-       ("fftw" ,fftw)
-       ("boost" ,boost)
-       ("zlib" ,zlib)))
+     (list samtools-0.1 fftw boost zlib))
     (home-page "https://github.com/KlugerLab/Ritornello")
     (synopsis "Control-free peak caller for ChIP-seq data")
     (description "Ritornello is a ChIP-seq peak calling algorithm based on
@@ -9314,12 +9095,9 @@ with narrow binding events such as transcription factor ChIP-seq.")
                (install-file "trim_galore" bin)
                #t))))))
     (inputs
-     `(("gzip" ,gzip)
-       ("perl" ,perl)
-       ("pigz" ,pigz)
-       ("cutadapt" ,cutadapt)))
+     (list gzip perl pigz cutadapt))
     (native-inputs
-     `(("unzip" ,unzip)))
+     (list unzip))
     (home-page "https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/")
     (synopsis "Wrapper around Cutadapt and FastQC")
     (description "Trim Galore! is a wrapper script to automate quality and
@@ -9465,22 +9243,19 @@ programs for inferring phylogenies (evolutionary trees).")
      `(("python" ,python-wrapper)
        ("swig" ,swig)))
     (inputs
-     `(("boost" ,boost)
-       ("cgal" ,cgal)
-       ("gsl" ,gsl)
-       ("hdf5" ,hdf5)
-       ("fftw" ,fftw)
-       ("eigen" ,eigen)
-       ;; Enabling MPI causes the build to use all the available memory and
-       ;; fail (tested on a machine with 32 GiB of RAM).
-       ;;("mpi" ,openmpi)
-       ("opencv" ,opencv)))
+     (list boost
+           cgal
+           gsl
+           hdf5
+           fftw
+           eigen
+           ;; Enabling MPI causes the build to use all the available memory and
+           ;; fail (tested on a machine with 32 GiB of RAM).
+           ;;("mpi" ,openmpi)
+           opencv))
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)
-       ("python-scipy" ,python-scipy)
-       ("python-pandas" ,python-pandas)
-       ("python-scikit-learn" ,python-scikit-learn)
-       ("python-networkx" ,python-networkx)))
+     (list python-numpy python-scipy python-pandas python-scikit-learn
+           python-networkx))
     (home-page "https://integrativemodeling.org")
     (synopsis "Integrative modeling platform")
     (description "IMP's broad goal is to contribute to a comprehensive
@@ -9538,18 +9313,18 @@ applications for tackling some common problems in a user-friendly way.")
                  (add-installed-pythonpath inputs outputs)
                  (invoke "python3" "test/test_all.py")))))))
       (native-inputs
-       `(("glib" ,glib "bin")             ;for gtester
-         ("pkg-config" ,pkg-config)))
+       (list `(,glib "bin") ;for gtester
+             pkg-config))
       (inputs
        ;; TODO: add Chimera for visualization
-       `(("imp" ,imp)
-         ("mcl" ,mcl)
-         ("python-future" ,python-future)
-         ("python-h5py" ,python-h5py)
-         ("python-scipy" ,python-scipy)
-         ("python-numpy" ,python-numpy)
-         ("python-matplotlib" ,python-matplotlib)
-         ("python-pysam" ,python-pysam)))
+       (list imp
+             mcl
+             python-future
+             python-h5py
+             python-scipy
+             python-numpy
+             python-matplotlib
+             python-pysam))
       (home-page "https://3dgenomes.github.io/TADbit/")
       (synopsis "Analyze, model, and explore 3C-based data")
       (description
@@ -9728,8 +9503,7 @@ browser.")
                  (install-file "build~/fseq.jar" lib)
                  (copy-recursively "lib" lib)))))))
       (inputs
-       `(("perl" ,perl)
-         ("java-commons-cli" ,java-commons-cli)))
+       (list perl java-commons-cli))
       (home-page "https://fureylab.web.unc.edu/software/fseq/")
       (synopsis "Feature density estimator for high-throughput sequence tags")
       (description
@@ -9815,9 +9589,7 @@ Browser.")
                                  "/bin/gunzip -c")))
                #t))))))
     (inputs
-     `(("gzip" ,gzip)
-       ("perl-carp" ,perl-carp)
-       ("perl-getopt-long" ,perl-getopt-long)))
+     (list gzip perl-carp perl-getopt-long))
     (native-inputs
      `(("plotly.js"
         ,(origin
@@ -9926,11 +9698,9 @@ using nucleotide or amino-acid sequence data.")
                            (install-file exe bin))
                          exes)))))))
     (inputs
-     `(("htslib" ,htslib)
-       ("ncurses" ,ncurses)
-       ("zlib" ,zlib)))
+     (list htslib ncurses zlib))
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     (list pkg-config))
     (home-page "https://www.bioinf.uni-leipzig.de/Software/segemehl")
     (synopsis "Map short sequencer reads to reference genomes")
     (description "Segemehl is software to map short sequencer reads to
@@ -9979,9 +9749,7 @@ output of segemehl is a SAM or BAM formatted alignment file.")
                (("include_directories\\(\\.\\./ext/htslib\\)") ""))
              #t)))))
     (inputs
-     `(("hdf5" ,hdf5)
-       ("htslib" ,htslib-1.9)
-       ("zlib" ,zlib)))
+     (list hdf5 htslib-1.9 zlib))
     (home-page "https://pachterlab.github.io/kallisto/")
     (synopsis "Near-optimal RNA-Seq quantification")
     (description
@@ -10147,7 +9915,7 @@ dependency like SeqAn.")
        ("tbb" ,tbb-2020)
        ("zlib" ,zlib)))
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     (list pkg-config))
     (home-page "https://www.cs.cmu.edu/~ckingsf/software/sailfish/")
     (synopsis "Mapping-based isoform quantification from RNA-Seq reads")
     (description "Sailfish is a tool for genomic transcript quantification
@@ -10322,7 +10090,7 @@ The following file formats are supported:
        ("xz" ,xz)
        ("zlib" ,zlib)))
     (native-inputs
-     `(("pkg-config" ,pkg-config)))
+     (list pkg-config))
     (home-page "https://github.com/COMBINE-lab/salmon")
     (synopsis "Quantification from RNA-seq reads using lightweight alignments")
     (description "Salmon is a program to produce highly-accurate,
@@ -10355,12 +10123,9 @@ variational inference.")
            (lambda _
              (invoke "pytest" "tests"))))))
     (propagated-inputs
-     `(("python-h5py" ,python-h5py)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-scipy" ,python-scipy)))
+     (list python-h5py python-numpy python-pandas python-scipy))
     (native-inputs
-     `(("python-pytest" ,python-pytest)))
+     (list python-pytest))
     (home-page "https://github.com/linnarsson-lab/loompy")
     (synopsis "Work with .loom files for single-cell RNA-seq data")
     (description "The loom file format is an efficient format for very large
@@ -10382,7 +10147,7 @@ single-cell RNA-seq data.")
         (base32 "0bccs37d5saxn5xsd2rfpkrnc5a120xs3ibizai66fgvp1vxbnc4"))))
     (build-system python-build-system)
     (arguments `(#:tests? #false)) ; require internet access
-    (propagated-inputs `(("python-requests" ,python-requests)))
+    (propagated-inputs (list python-requests))
     (home-page "https://github.com/biothings/biothings_client.py")
     (synopsis "Python client for BioThings API services")
     (description "This package provides a Python client for BioThings
@@ -10401,7 +10166,7 @@ API services.")
         (base32 "1snszwdgfygchxshcbry3b5pbcw3g1isp8dw46razxccqaxwlag7"))))
     (build-system python-build-system)
     (propagated-inputs
-     `(("python-biothings-client" ,python-biothings-client)))
+     (list python-biothings-client))
     (home-page "https://github.com/biothings/mygene.py")
     (synopsis "Python Client for MyGene.Info services.")
     (description "MyGene.Info provides simple-to-use REST web services
@@ -10477,8 +10242,7 @@ MyGene.Info services.")
            ;; There is no install target
            (replace 'install (install-jars ".")))))
       (propagated-inputs
-       `(("java-commons-codec" ,java-commons-codec)
-         ("java-openchart2" ,java-openchart2)))
+       (list java-commons-codec java-openchart2))
       (home-page "https://sites.google.com/site/cmzmasek/home/software/forester")
       (synopsis "Phylogenomics libraries for Java")
       (description "Forester is a collection of Java libraries for
@@ -10550,8 +10314,7 @@ reading, writing, and exporting phylogenetic trees.")
          ;; There is no install target
          (replace 'install (install-jars ".")))))
     (propagated-inputs
-     `(("java-commons-codec" ,java-commons-codec)
-       ("java-openchart2" ,java-openchart2)))
+     (list java-commons-codec java-openchart2))
     ;; The source archive does not contain the resources.
     (native-inputs
      `(("phyloxml.xsd"
@@ -10619,13 +10382,10 @@ reading, writing, and exporting phylogenetic trees.")
                                "build/test-classes")
              #t)))))
     (propagated-inputs
-     `(("java-log4j-api" ,java-log4j-api)
-       ("java-log4j-core" ,java-log4j-core)
-       ("java-slf4j-api" ,java-slf4j-api)
-       ("java-slf4j-simple" ,java-slf4j-simple)))
+     (list java-log4j-api java-log4j-core java-slf4j-api
+           java-slf4j-simple))
     (native-inputs
-     `(("java-junit" ,java-junit)
-       ("java-hamcrest-core" ,java-hamcrest-core)))
+     (list java-junit java-hamcrest-core))
     (home-page "https://biojava.org")
     (synopsis "Core libraries of Java framework for processing biological data")
     (description "BioJava is a project dedicated to providing a Java framework
@@ -10660,15 +10420,14 @@ This package provides the core libraries.")
                                "build/test-classes")
              #t)))))
     (propagated-inputs
-     `(("java-log4j-api" ,java-log4j-api)
-       ("java-log4j-core" ,java-log4j-core)
-       ("java-slf4j-api" ,java-slf4j-api)
-       ("java-slf4j-simple" ,java-slf4j-simple)
-       ("java-biojava-core" ,java-biojava-core)
-       ("java-forester" ,java-forester)))
-    (native-inputs
-     `(("java-junit" ,java-junit)
-       ("java-hamcrest-core" ,java-hamcrest-core)))
+     (list java-log4j-api
+           java-log4j-core
+           java-slf4j-api
+           java-slf4j-simple
+           java-biojava-core
+           java-forester))
+    (native-inputs
+     (list java-junit java-hamcrest-core))
     (home-page "https://biojava.org")
     (synopsis "Biojava interface to the forester phylogenomics library")
     (description "The phylo module provides a biojava interface layer to the
@@ -10696,16 +10455,15 @@ forester phylogenomics library for constructing phylogenetic trees.")))
                                "build/test-classes")
              #t)))))
     (propagated-inputs
-     `(("java-log4j-api" ,java-log4j-api)
-       ("java-log4j-core" ,java-log4j-core)
-       ("java-slf4j-api" ,java-slf4j-api)
-       ("java-slf4j-simple" ,java-slf4j-simple)
-       ("java-biojava-core" ,java-biojava-core)
-       ("java-biojava-phylo" ,java-biojava-phylo)
-       ("java-forester" ,java-forester)))
-    (native-inputs
-     `(("java-junit" ,java-junit)
-       ("java-hamcrest-core" ,java-hamcrest-core)))
+     (list java-log4j-api
+           java-log4j-core
+           java-slf4j-api
+           java-slf4j-simple
+           java-biojava-core
+           java-biojava-phylo
+           java-forester))
+    (native-inputs
+     (list java-junit java-hamcrest-core))
     (home-page "https://biojava.org")
     (synopsis "Biojava API for genetic sequence alignment")
     (description "The alignment module of BioJava provides an API that
@@ -10754,15 +10512,14 @@ contains
                                "build/test-classes")
              #t)))))
     (propagated-inputs
-     `(("java-log4j-api" ,java-log4j-api)
-       ("java-log4j-core" ,java-log4j-core)
-       ("java-slf4j-api" ,java-slf4j-api)
-       ("java-slf4j-simple" ,java-slf4j-simple)
-       ("java-biojava-core" ,java-biojava-core-4.0)
-       ("java-forester" ,java-forester-1.005)))
-    (native-inputs
-     `(("java-junit" ,java-junit)
-       ("java-hamcrest-core" ,java-hamcrest-core)))
+     (list java-log4j-api
+           java-log4j-core
+           java-slf4j-api
+           java-slf4j-simple
+           java-biojava-core-4.0
+           java-forester-1.005))
+    (native-inputs
+     (list java-junit java-hamcrest-core))
     (home-page "https://biojava.org")
     (synopsis "Biojava interface to the forester phylogenomics library")
     (description "The phylo module provides a biojava interface layer to the
@@ -10790,16 +10547,15 @@ forester phylogenomics library for constructing phylogenetic trees.")))
                                "build/test-classes")
              #t)))))
     (propagated-inputs
-     `(("java-log4j-api" ,java-log4j-api)
-       ("java-log4j-core" ,java-log4j-core)
-       ("java-slf4j-api" ,java-slf4j-api)
-       ("java-slf4j-simple" ,java-slf4j-simple)
-       ("java-biojava-core" ,java-biojava-core-4.0)
-       ("java-biojava-phylo" ,java-biojava-phylo-4.0)
-       ("java-forester" ,java-forester-1.005)))
-    (native-inputs
-     `(("java-junit" ,java-junit)
-       ("java-hamcrest-core" ,java-hamcrest-core)))
+     (list java-log4j-api
+           java-log4j-core
+           java-slf4j-api
+           java-slf4j-simple
+           java-biojava-core-4.0
+           java-biojava-phylo-4.0
+           java-forester-1.005))
+    (native-inputs
+     (list java-junit java-hamcrest-core))
     (home-page "https://biojava.org")
     (synopsis "Biojava API for genetic sequence alignment")
     (description "The alignment module of BioJava provides an API that
@@ -10940,8 +10696,7 @@ contains
        ("java-simple-xml" ,java-simple-xml)
        ("java-snakeyaml" ,java-snakeyaml)))
     (native-inputs
-     `(("unzip" ,unzip)
-       ("java-testng" ,java-testng)))
+     (list unzip java-testng))
     (home-page "http://mccarrolllab.com/dropseq/")
     (synopsis "Tools for Drop-seq analyses")
     (description "Drop-seq is a technology to enable biologists to
@@ -10985,44 +10740,42 @@ once.  This package provides tools to perform Drop-seq analyses.")
                      (search-input-directory inputs
                                              "share/zoneinfo")))))))
     (inputs
-     `(("coreutils" ,coreutils)
-       ("sed" ,sed)
-       ("gzip" ,gzip)
-       ("snakemake" ,snakemake)
-       ("multiqc" ,multiqc)
-       ("star" ,star-for-pigx)
-       ("hisat2" ,hisat2)
-       ("fastp" ,fastp)
-       ("htseq" ,htseq)
-       ("samtools" ,samtools)
-       ("r-minimal" ,r-minimal)
-       ("r-rmarkdown" ,r-rmarkdown)
-       ("r-ggplot2" ,r-ggplot2)
-       ("r-ggpubr" ,r-ggpubr)
-       ("r-ggrepel" ,r-ggrepel)
-       ("r-gprofiler2" ,r-gprofiler2)
-       ("r-deseq2" ,r-deseq2)
-       ("r-dt" ,r-dt)
-       ("r-knitr" ,r-knitr)
-       ("r-pheatmap" ,r-pheatmap)
-       ("r-corrplot" ,r-corrplot)
-       ("r-reshape2" ,r-reshape2)
-       ("r-plotly" ,r-plotly)
-       ("r-scales" ,r-scales)
-       ("r-summarizedexperiment" ,r-summarizedexperiment)
-       ("r-crosstalk" ,r-crosstalk)
-       ("r-tximport" ,r-tximport)
-       ("r-rtracklayer" ,r-rtracklayer)
-       ("r-rjson" ,r-rjson)
-       ("salmon" ,salmon)
-       ("pandoc" ,pandoc)
-       ("python-wrapper" ,python-wrapper)
-       ("python-deeptools" ,python-deeptools)
-       ("python-pyyaml" ,python-pyyaml)))
-    (native-inputs
-     `(("tzdata" ,tzdata)
-       ("automake" ,automake)
-       ("autoconf" ,autoconf)))
+     (list coreutils
+           sed
+           gzip
+           snakemake
+           multiqc
+           star-for-pigx
+           hisat2
+           fastp
+           htseq
+           samtools
+           r-minimal
+           r-rmarkdown
+           r-ggplot2
+           r-ggpubr
+           r-ggrepel
+           r-gprofiler2
+           r-deseq2
+           r-dt
+           r-knitr
+           r-pheatmap
+           r-corrplot
+           r-reshape2
+           r-plotly
+           r-scales
+           r-summarizedexperiment
+           r-crosstalk
+           r-tximport
+           r-rtracklayer
+           r-rjson
+           salmon
+           pandoc
+           python-wrapper
+           python-deeptools
+           python-pyyaml))
+    (native-inputs
+     (list tzdata automake autoconf))
     (home-page "https://bioinformatics.mdc-berlin.de/pigx/")
     (synopsis "Analysis pipeline for RNA sequencing experiments")
     (description "PiGX RNAseq is an analysis pipeline for preprocessing and
@@ -11055,58 +10808,56 @@ expression report comparing samples in an easily configurable manner.")
            (lambda _
              (invoke "autoreconf" "-vif"))))))
     (inputs
-     `(("grep" ,grep)
-       ("coreutils" ,coreutils)
-       ("r-minimal" ,r-minimal)
-       ("r-argparser" ,r-argparser)
-       ("r-biocparallel" ,r-biocparallel)
-       ("r-biostrings" ,r-biostrings)
-       ("r-chipseq" ,r-chipseq)
-       ("r-corrplot" ,r-corrplot)
-       ("r-data-table" ,r-data-table)
-       ("r-deseq2" ,r-deseq2)
-       ("r-dplyr" ,r-dplyr)
-       ("r-dt" ,r-dt)
-       ("r-genomation" ,r-genomation)
-       ("r-genomicalignments" ,r-genomicalignments)
-       ("r-genomicranges" ,r-genomicranges)
-       ("r-ggplot2" ,r-ggplot2)
-       ("r-ggrepel" ,r-ggrepel)
-       ("r-gprofiler2" ,r-gprofiler2)
-       ("r-heatmaply" ,r-heatmaply)
-       ("r-hexbin" ,r-hexbin)
-       ("r-htmlwidgets" ,r-htmlwidgets)
-       ("r-jsonlite" ,r-jsonlite)
-       ("r-pheatmap" ,r-pheatmap)
-       ("r-plotly" ,r-plotly)
-       ("r-rmarkdown" ,r-rmarkdown)
-       ("r-rsamtools" ,r-rsamtools)
-       ("r-rsubread" ,r-rsubread)
-       ("r-rtracklayer" ,r-rtracklayer)
-       ("r-s4vectors" ,r-s4vectors)
-       ("r-stringr" ,r-stringr)
-       ("r-tibble" ,r-tibble)
-       ("r-tidyr" ,r-tidyr)
-       ("python-wrapper" ,python-wrapper)
-       ("python-pyyaml" ,python-pyyaml)
-       ("python-magic" ,python-magic)
-       ("python-xlrd" ,python-xlrd)
-       ("trim-galore" ,trim-galore)
-       ("macs" ,macs)
-       ("multiqc" ,multiqc)
-       ("perl" ,perl)
-       ("pandoc" ,pandoc)
-       ("fastqc" ,fastqc)
-       ("bowtie" ,bowtie)
-       ("idr" ,idr)
-       ("snakemake" ,snakemake)
-       ("samtools" ,samtools)
-       ("bedtools" ,bedtools)
-       ("kentutils" ,kentutils)))
-    (native-inputs
-     `(("autoconf" ,autoconf)
-       ("automake" ,automake)
-       ("python-pytest" ,python-pytest)))
+     (list grep
+           coreutils
+           r-minimal
+           r-argparser
+           r-biocparallel
+           r-biostrings
+           r-chipseq
+           r-corrplot
+           r-data-table
+           r-deseq2
+           r-dplyr
+           r-dt
+           r-genomation
+           r-genomicalignments
+           r-genomicranges
+           r-ggplot2
+           r-ggrepel
+           r-gprofiler2
+           r-heatmaply
+           r-hexbin
+           r-htmlwidgets
+           r-jsonlite
+           r-pheatmap
+           r-plotly
+           r-rmarkdown
+           r-rsamtools
+           r-rsubread
+           r-rtracklayer
+           r-s4vectors
+           r-stringr
+           r-tibble
+           r-tidyr
+           python-wrapper
+           python-pyyaml
+           python-magic
+           python-xlrd
+           trim-galore
+           macs
+           multiqc
+           perl
+           pandoc
+           fastqc
+           bowtie
+           idr
+           snakemake
+           samtools
+           bedtools
+           kentutils))
+    (native-inputs
+     (list autoconf automake python-pytest))
     (home-page "https://bioinformatics.mdc-berlin.de/pigx/")
     (synopsis "Analysis pipeline for ChIP sequencing experiments")
     (description "PiGX ChIPseq is an analysis pipeline for preprocessing, peak
@@ -11149,41 +10900,39 @@ in an easily configurable manner.")
                      (search-input-directory inputs
                                              "share/zoneinfo")))))))
     (native-inputs
-     `(("tzdata" ,tzdata)
-       ("automake" ,automake)
-       ("autoconf" ,autoconf)))
-    (inputs
-     `(("coreutils" ,coreutils)
-       ("sed" ,sed)
-       ("grep" ,grep)
-       ("r-minimal" ,r-minimal)
-       ("r-annotationhub" ,r-annotationhub)
-       ("r-dt" ,r-dt)
-       ("r-genomation" ,r-genomation)
-       ("r-ggbio" ,r-ggbio)
-       ("r-ggrepel" ,r-ggrepel)
-       ("r-matrixstats" ,r-matrixstats)
-       ("r-methylkit" ,r-methylkit)
-       ("r-reshape2" ,r-reshape2)
-       ("r-rtracklayer" ,r-rtracklayer)
-       ("r-rmarkdown" ,r-rmarkdown)
-       ("r-bookdown" ,r-bookdown)
-       ("r-ggplot2" ,r-ggplot2)
-       ("r-ggbio" ,r-ggbio)
-       ("pandoc" ,pandoc)
-       ("python-wrapper" ,python-wrapper)
-       ("python-pyyaml" ,python-pyyaml)
-       ("snakemake" ,snakemake)
-       ("bismark" ,bismark)
-       ("bowtie" ,bowtie)
-       ("bwa-meth" ,bwa-meth)
-       ("fastqc" ,fastqc)
-       ("methyldackel" ,methyldackel)
-       ("multiqc" ,multiqc)
-       ("trim-galore" ,trim-galore)
-       ("cutadapt" ,cutadapt)
-       ("samblaster" ,samblaster)
-       ("samtools" ,samtools)))
+     (list tzdata automake autoconf))
+    (inputs
+     (list coreutils
+           sed
+           grep
+           r-minimal
+           r-annotationhub
+           r-dt
+           r-genomation
+           r-ggbio
+           r-ggrepel
+           r-matrixstats
+           r-methylkit
+           r-reshape2
+           r-rtracklayer
+           r-rmarkdown
+           r-bookdown
+           r-ggplot2
+           r-ggbio
+           pandoc
+           python-wrapper
+           python-pyyaml
+           snakemake
+           bismark
+           bowtie
+           bwa-meth
+           fastqc
+           methyldackel
+           multiqc
+           trim-galore
+           cutadapt
+           samblaster
+           samtools))
     (home-page "https://bioinformatics.mdc-berlin.de/pigx/")
     (synopsis "Bisulfite sequencing pipeline from fastq to methylation reports")
     (description "PiGx BSseq is a data processing pipeline for raw fastq read
@@ -11213,8 +10962,7 @@ methylation and segmentation.")
            (lambda _
              (invoke "autoreconf" "-vif"))))))
     (native-inputs
-     `(("automake" ,automake)
-       ("autoconf" ,autoconf)))
+     (list automake autoconf))
     (inputs
      `(("coreutils" ,coreutils)
        ("perl" ,perl)
@@ -11288,40 +11036,39 @@ based methods.")
            (lambda _
              (invoke "autoreconf" "-vif"))))))
     (native-inputs
-     `(("automake" ,automake)
-       ("autoconf" ,autoconf)))
-    (inputs
-     `(("bash-minimal" ,bash-minimal)
-       ("bbmap" ,bbmap)
-       ("bedtools" ,bedtools)
-       ("bwa" ,bwa)
-       ("ensembl-vep" ,ensembl-vep)
-       ("fastp" ,fastp)
-       ("fastqc" ,fastqc)
-       ("ivar" ,ivar)
-       ("kraken2" ,kraken2)
-       ("krona-tools" ,krona-tools)
-       ("lofreq" ,lofreq)
-       ("multiqc" ,multiqc)
-       ("prinseq" ,prinseq)
-       ("python-pyyaml" ,python-pyyaml)
-       ("python-wrapper" ,python-wrapper)
-       ("r-base64url" ,r-base64url)
-       ("r-dplyr" ,r-dplyr)
-       ("r-dt" ,r-dt)
-       ("r-ggplot2" ,r-ggplot2)
-       ("r-magrittr" ,r-magrittr)
-       ("r-minimal" ,r-minimal)
-       ("r-plotly" ,r-plotly)
-       ("r-qpcr" ,r-qpcr)
-       ("r-r-utils" ,r-r-utils)
-       ("r-reshape2" ,r-reshape2)
-       ("r-rmarkdown" ,r-rmarkdown)
-       ("r-stringr" ,r-stringr)
-       ("r-tidyr" ,r-tidyr)
-       ("samtools" ,samtools)
-       ("snakemake" ,snakemake)
-       ("wget" ,wget)))
+     (list automake autoconf))
+    (inputs
+     (list bash-minimal
+           bbmap
+           bedtools
+           bwa
+           ensembl-vep
+           fastp
+           fastqc
+           ivar
+           kraken2
+           krona-tools
+           lofreq
+           multiqc
+           prinseq
+           python-pyyaml
+           python-wrapper
+           r-base64url
+           r-dplyr
+           r-dt
+           r-ggplot2
+           r-magrittr
+           r-minimal
+           r-plotly
+           r-qpcr
+           r-r-utils
+           r-reshape2
+           r-rmarkdown
+           r-stringr
+           r-tidyr
+           samtools
+           snakemake
+           wget))
     (home-page "https://bioinformatics.mdc-berlin.de/pigx/")
     (synopsis "Analysis pipeline for wastewater sequencing")
     (description "PiGx SARS-CoV-2 is a pipeline for analysing data from
@@ -11345,11 +11092,7 @@ variant abundance over time and location.")
                 "1i5njdy1clj5ncw45d16p7mwmqvb1ilikl9n797pxklc3f4s7mq7"))))
     (build-system gnu-build-system)
     (inputs
-     `(("python" ,python)
-       ("pigx-bsseq" ,pigx-bsseq)
-       ("pigx-chipseq" ,pigx-chipseq)
-       ("pigx-rnaseq" ,pigx-rnaseq)
-       ("pigx-scrnaseq" ,pigx-scrnaseq)))
+     (list python pigx-bsseq pigx-chipseq pigx-rnaseq pigx-scrnaseq))
     (home-page "https://bioinformatics.mdc-berlin.de/pigx/")
     (synopsis "Analysis pipelines for genomics")
     (description "PiGx is a collection of genomics pipelines.  It includes the
@@ -11391,7 +11134,7 @@ HTML reports with interesting findings about your samples.")
              (install-file "Genrich" (string-append (assoc-ref outputs "out") "/bin"))
              #t)))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://github.com/jsh58/Genrich")
     (synopsis "Detecting sites of genomic enrichment")
     (description "Genrich is a peak-caller for genomic enrichment
@@ -11421,11 +11164,9 @@ enrichment.")
        '(#:tests? #f ; there are none
          #:configure-flags (list "-DNH=ON"))) ; do not use SSE4.2 instructions
       (inputs
-       `(("sdsl-lite" ,sdsl-lite)
-         ("openssl" ,openssl)
-         ("zlib" ,zlib)))
+       (list sdsl-lite openssl zlib))
       (native-inputs
-       `(("gcc" ,gcc-7)))
+       (list gcc-7))
       (home-page "https://github.com/splatlab/mantis")
       (synopsis "Large-scale sequence-search index data structure")
       (description "Mantis is a space-efficient data structure that can be
@@ -11480,8 +11221,7 @@ analyses in addition to large-scale sequence-level searches.")
                                                         "/bin")))
                          '("j_count" "b_count" "sjcount")))))))
       (inputs
-       `(("samtools" ,samtools-0.1)
-         ("zlib" ,zlib)))
+       (list samtools-0.1 zlib))
       (home-page "https://github.com/pervouchine/sjcount-full/")
       (synopsis "Annotation-agnostic splice junction counting pipeline")
       (description "Sjcount is a utility for fast quantification of splice
@@ -11556,7 +11296,7 @@ version does count multisplits.")
                           out ,version))))
              #t)))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://lh3.github.io/minimap2/")
     (synopsis "Pairwise aligner for genomic and spliced nucleotide sequences")
     (description "Minimap2 is a versatile sequence alignment program that
@@ -11587,9 +11327,9 @@ cases include:
               "1a05p7rkmxa6qhm108na8flzj2v45jab06drk59kzk1ip2sgvzqq"))))
    (build-system python-build-system)
    (native-inputs
-    `(("python-cython" ,python-cython)))
+    (list python-cython))
    (inputs
-    `(("zlib" ,zlib)))
+    (list zlib))
    (home-page "https://github.com/lh3/minimap2")
    (synopsis "Python binding for minimap2")
    (description "This package provides a convenient interface to minimap2,
@@ -11612,7 +11352,7 @@ sequences.")
               "04dv5wv8bhsw1imxwyd438bnn9kby7svp44nbcz8lsadzjjci5gs"))))
    (build-system gnu-build-system)
    (inputs
-    `(("zlib" ,zlib)))
+    (list zlib))
    (arguments
     `(#:tests? #f ; There are no tests.
       #:phases
@@ -11670,10 +11410,9 @@ Thus the per-base error rate is similar to the raw input reads.")
                (install-file "Bandage" (string-append out "/bin"))
                #t))))))
     (inputs
-     `(("qtbase" ,qtbase-5)
-       ("qtsvg" ,qtsvg)))
+     (list qtbase-5 qtsvg))
     (native-inputs
-     `(("imagemagick" ,imagemagick)))
+     (list imagemagick))
     (home-page "https://rrwick.github.io/Bandage/")
     (synopsis
      "Bioinformatics Application for Navigating De novo Assembly Graphs Easily")
@@ -11709,10 +11448,10 @@ contigs alone.")
     ;; The test suite attempts to execute ../test-driver, which does not exist.
     (arguments '(#:tests? #false))
     (propagated-inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (native-inputs
-     `(("gcc" ,gcc-10)                   ;Code has C++17 requirements
-       ("pkg-config" ,pkg-config)))
+     (list gcc-10 ;Code has C++17 requirements
+           pkg-config))
     (home-page "https://gitlab.com/german.tischler/libmaus2")
     (synopsis "Collection of data structures and algorithms useful for bioinformatics")
     (description "libmaus2 is a collection of data structures and
@@ -11753,11 +11492,10 @@ and many lower level support classes.
        ,#~(list (string-append "--with-libmaus2="
                                #$(this-package-input "libmaus2")))))
     (inputs
-     `(("libmaus2" ,libmaus2)
-       ("xerces-c" ,xerces-c)))
+     (list libmaus2 xerces-c))
     (native-inputs
-     `(("gcc" ,gcc-10)                  ;Code has C++17 requirements
-       ("pkg-config" ,pkg-config)))
+     (list gcc-10 ;Code has C++17 requirements
+           pkg-config))
     (home-page "https://gitlab.com/german.tischler/biobambam2")
     (synopsis "Tools for processing BAM files")
     (description "This package contains some tools for processing BAM files
@@ -11798,23 +11536,23 @@ including:
          "0jhjn3ilb057hbf6yzrihj13ifxxs32y7nkby8l3lkm28dg4p97h"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-annotationdbi" ,r-annotationdbi)
-       ("r-annotationhub" ,r-annotationhub)
-       ("r-biomart" ,r-biomart)
-       ("r-data-table" ,r-data-table)
-       ("r-dbi" ,r-dbi)
-       ("r-genomicfeatures" ,r-genomicfeatures)
-       ("r-genomicranges" ,r-genomicranges)
-       ("r-ggplot2" ,r-ggplot2)
-       ("r-hash" ,r-hash)
-       ("r-iranges" ,r-iranges)
-       ("r-rcolorbrewer" ,r-rcolorbrewer)
-       ("r-rmysql" ,r-rmysql)
-       ("r-s4vectors" ,r-s4vectors)
-       ("r-stringr" ,r-stringr)
-       ("r-summarizedexperiment" ,r-summarizedexperiment)))
-    (native-inputs
-     `(("r-knitr" ,r-knitr)))
+     (list r-annotationdbi
+           r-annotationhub
+           r-biomart
+           r-data-table
+           r-dbi
+           r-genomicfeatures
+           r-genomicranges
+           r-ggplot2
+           r-hash
+           r-iranges
+           r-rcolorbrewer
+           r-rmysql
+           r-s4vectors
+           r-stringr
+           r-summarizedexperiment))
+    (native-inputs
+     (list r-knitr))
     (home-page "https://github.com/BIMSBbioinfo/ciRcus")
     (synopsis "Annotation, analysis and visualization of circRNA data")
     (description "Circus is an R package for annotation, analysis and
@@ -11927,9 +11665,7 @@ conversions, region filtering, FASTA sequence extraction and more.")
                              "unmapped2anchors.py")))
                #t)))))
       (inputs
-       `(("python2" ,python-2)
-         ("python2-pysam" ,python2-pysam)
-         ("python2-numpy" ,python2-numpy)))
+       (list python-2 python2-pysam python2-numpy))
       (home-page "https://github.com/marvin-jens/find_circ")
       (synopsis "circRNA detection from RNA-seq reads")
       (description "This package provides tools to detect head-to-tail
@@ -11980,7 +11716,7 @@ in RNA-seq data.")
                   (string-append "FAST_TSNE_SCRIPT_DIR = \"" out "\"\n")))
                (install-file "fast_tsne.R" share)))))))
     (inputs
-     `(("fftw" ,fftw)))
+     (list fftw))
     (home-page "https://github.com/KlugerLab/FIt-SNE")
     (synopsis "Fast Fourier Transform-accelerated interpolation-based t-SNE")
     (description "@dfn{t-Stochastic Neighborhood Embedding} (t-SNE) is a
@@ -12078,28 +11814,28 @@ implementation differs in these ways:
                                       " and not test_pca_sparse"
                                       " and not test_pca_reproducible"))))))))
     (propagated-inputs
-     `(("python-anndata" ,python-anndata)
-       ("python-h5py" ,python-h5py)
-       ("python-igraph" ,python-igraph)
-       ("python-joblib" ,python-joblib)
-       ("python-legacy-api-wrap" ,python-legacy-api-wrap)
-       ("python-louvain" ,python-louvain-0.6)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-natsort" ,python-natsort)
-       ("python-networkx" ,python-networkx)
-       ("python-numba" ,python-numba)
-       ("python-packaging" ,python-packaging)
-       ("python-pandas" ,python-pandas)
-       ("python-patsy" ,python-patsy)
-       ("python-scikit-learn" ,python-scikit-learn)
-       ("python-scipy" ,python-scipy)
-       ("python-seaborn" ,python-seaborn)
-       ("python-sinfo" ,python-sinfo)
-       ("python-statsmodels" ,python-statsmodels)
-       ("python-tables" ,python-tables)
-       ("python-pytoml" ,python-pytoml)
-       ("python-tqdm" ,python-tqdm)
-       ("python-umap-learn" ,python-umap-learn)))
+     (list python-anndata
+           python-h5py
+           python-igraph
+           python-joblib
+           python-legacy-api-wrap
+           python-louvain-0.6
+           python-matplotlib
+           python-natsort
+           python-networkx
+           python-numba
+           python-packaging
+           python-pandas
+           python-patsy
+           python-scikit-learn
+           python-scipy
+           python-seaborn
+           python-sinfo
+           python-statsmodels
+           python-tables
+           python-pytoml
+           python-tqdm
+           python-umap-learn))
     (native-inputs
      `(;; This package needs anndata.tests, which is not installed.
        ("python-anndata:source" ,(package-source python-anndata))
@@ -12138,12 +11874,12 @@ million cells.")
              (substitute* "setup.py"
                (("'sklearn'") "")))))))
     (propagated-inputs
-     `(("python-annoy" ,python-annoy)
-       ("python-cython" ,python-cython)
-       ("python-numpy" ,python-numpy)
-       ("python-scikit-learn" ,python-scikit-learn)
-       ("python-scipy" ,python-scipy)
-       ("python-umap-learn" ,python-umap-learn)))
+     (list python-annoy
+           python-cython
+           python-numpy
+           python-scikit-learn
+           python-scipy
+           python-umap-learn))
     (home-page "https://github.com/Teichlab/bbknn")
     (synopsis "Batch balanced KNN")
     (description "BBKNN is a batch effect removal tool that can be directly
@@ -12171,14 +11907,14 @@ altering the counts or PCA space.")
          "08vk0x6v5c5n7afgd5pcjhsvb424absypxy22hw1cm1n9kirbi77"))))
     (build-system python-build-system)
     (propagated-inputs
-     `(("python-biopython" ,python-biopython)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-pytest" ,python-pytest)
-       ("python-scikit-learn" ,python-scikit-learn)
-       ("python-seaborn" ,python-seaborn)
-       ("python-tqdm" ,python-tqdm)))
+     (list python-biopython
+           python-matplotlib
+           python-numpy
+           python-pandas
+           python-pytest
+           python-scikit-learn
+           python-seaborn
+           python-tqdm))
     (home-page "https://github.com/MrOlm/drep")
     (synopsis "De-replication of microbial genomes assembled from multiple samples")
     (description
@@ -12211,24 +11947,24 @@ set.")
                (("from job_utils")
                 "from .job_utils")))))))
     (inputs
-     `(("python-biopython" ,python-biopython-1.73)
-       ("python-boto3" ,python-boto3)
-       ("python-h5py" ,python-h5py)
-       ("python-lmfit" ,python-lmfit)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-networkx" ,python-networkx)
-       ("python-numba" ,python-numba)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-psutil" ,python-psutil)
-       ("python-pysam" ,python-pysam)
-       ("python-scikit-learn" ,python-scikit-learn)
-       ("python-seaborn" ,python-seaborn)
-       ("python-tqdm" ,python-tqdm)
-       ;; drep is needed for deprecated plot utilities
-       ("python-drep" ,python-drep)))
-    (native-inputs
-     `(("python-pytest" ,python-pytest)))
+     (list python-biopython-1.73
+           python-boto3
+           python-h5py
+           python-lmfit
+           python-matplotlib
+           python-networkx
+           python-numba
+           python-numpy
+           python-pandas
+           python-psutil
+           python-pysam
+           python-scikit-learn
+           python-seaborn
+           python-tqdm
+           ;; drep is needed for deprecated plot utilities
+           python-drep))
+    (native-inputs
+     (list python-pytest))
     (home-page "https://github.com/MrOlm/inStrain")
     (synopsis "Calculation of strain-level metrics")
     (description
@@ -12359,9 +12095,9 @@ allowing the insertion of arbitrary types into the tree.")
              (setenv "PY_IGNORE_IMPORTMISMATCH" "1")
              #t)))))
     (propagated-inputs
-     `(("python-sortedcontainers" ,python-sortedcontainers)))
+     (list python-sortedcontainers))
     (native-inputs
-     `(("python-pytest" ,python-pytest)))
+     (list python-pytest))
     (home-page "https://github.com/chaimleib/intervaltree")
     (synopsis "Editable interval tree data structure")
     (description
@@ -12401,7 +12137,7 @@ bound.")
                                       "/bin"))
              #t)))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://github.com/4dn-dcic/pairix")
     (synopsis "Support for querying pairix-indexed bgzipped text files")
     (description
@@ -12422,7 +12158,7 @@ bgzipped text file that contains a pair of genomic coordinates per line.")
          "038xi3a6zvrxbyyfpp64ka8pcjgsdq4fgw9cl5lpxbvmm1bzzw2q"))))
     (build-system python-build-system)
     (propagated-inputs
-     `(("python-six" ,python-six)))
+     (list python-six))
     (home-page "http://mattshirley.com")
     (synopsis "Random access to fasta subsequences")
     (description
@@ -12470,29 +12206,26 @@ fasta subsequences.")
              (when tests?
                (invoke "python" "-m" "pytest" "-v")))))))
     (propagated-inputs
-     `(("python-asciitree" ,python-asciitree)
-       ("python-biopython" ,python-biopython)
-       ("python-click" ,python-click)
-       ("python-cytoolz" ,python-cytoolz-for-cooler)
-       ("python-dask" ,python-dask)
-       ("python-h5py" ,python-h5py)
-       ("python-multiprocess" ,python-multiprocess)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-pyfaidx" ,python-pyfaidx)
-       ("python-pypairix" ,python-pypairix)
-       ("python-pysam" ,python-pysam)
-       ("python-pyyaml" ,python-pyyaml)
-       ("python-scipy" ,python-scipy)
-       ("python-simplejson" ,python-simplejson)
-       ("python-six" ,python-six)
-       ("python-sparse" ,python-sparse)))
-    (native-inputs
-     `(("python-codecov" ,python-codecov)
-       ("python-mock" ,python-mock)
-       ("python-pytest" ,python-pytest)
-       ("python-pytest-cov" ,python-pytest-cov)
-       ("python-pytest-flake8" ,python-pytest-flake8)))
+     (list python-asciitree
+           python-biopython
+           python-click
+           python-cytoolz-for-cooler
+           python-dask
+           python-h5py
+           python-multiprocess
+           python-numpy
+           python-pandas
+           python-pyfaidx
+           python-pypairix
+           python-pysam
+           python-pyyaml
+           python-scipy
+           python-simplejson
+           python-six
+           python-sparse))
+    (native-inputs
+     (list python-codecov python-mock python-pytest python-pytest-cov
+           python-pytest-flake8))
     ;; Almost all the projects of the Mirnylab are moved under Open2C umbrella
     (home-page "https://github.com/open2c/cooler")
     (synopsis "Sparse binary format for genomic interaction matrices")
@@ -12526,14 +12259,14 @@ such as Hi-C contact matrices.")
              (when tests?
                (invoke "python" "-m" "pytest" "-v")))))))
     (propagated-inputs
-     `(("python-cooler" ,python-cooler)
-       ("python-intervaltree" ,python-intervaltree)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-scipy" ,python-scipy)
-       ("python-tables" ,python-tables)))
-    (native-inputs
-     `(("python-pytest" ,python-pytest)))
+     (list python-cooler
+           python-intervaltree
+           python-numpy
+           python-pandas
+           python-scipy
+           python-tables))
+    (native-inputs
+     (list python-pytest))
     (home-page "https://github.com/deeptools/HiCMatrix/")
     (synopsis "HiCMatrix class for HiCExplorer and pyGenomeTracks")
     (description
@@ -12566,21 +12299,21 @@ the HiCExplorer and pyGenomeTracks packages.")
                (("==") ">="))
              #t)))))
     (propagated-inputs
-     `(("python-biopython" ,python-biopython)
-       ("python-configparser" ,python-configparser)
-       ("python-cooler" ,python-cooler)
-       ("python-future" ,python-future)
-       ("python-intervaltree" ,python-intervaltree)
-       ("python-jinja2" ,python-jinja2)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-pybigwig" ,python-pybigwig)
-       ("python-pysam" ,python-pysam)
-       ("python-scipy" ,python-scipy)
-       ("python-six" ,python-six)
-       ("python-tables" ,python-tables)
-       ("python-unidecode" ,python-unidecode)))
+     (list python-biopython
+           python-configparser
+           python-cooler
+           python-future
+           python-intervaltree
+           python-jinja2
+           python-matplotlib
+           python-numpy
+           python-pandas
+           python-pybigwig
+           python-pysam
+           python-scipy
+           python-six
+           python-tables
+           python-unidecode))
     (home-page "https://hicexplorer.readthedocs.io")
     (synopsis "Process, analyze and visualize Hi-C data")
     (description
@@ -12617,17 +12350,17 @@ genomic scores), long range contacts and the visualization of viewpoints.")
                 "matplotlib >=3.1.1"))
              #t)))))
     (propagated-inputs
-     `(("python-future" ,python-future)
-       ("python-gffutils" ,python-gffutils)
-       ("python-hicmatrix" ,python-hicmatrix)
-       ("python-intervaltree" ,python-intervaltree)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-numpy" ,python-numpy)
-       ("python-pybigwig" ,python-pybigwig)
-       ("python-pysam" ,python-pysam)
-       ("python-tqdm" ,python-tqdm)))
-    (native-inputs
-     `(("python-pytest" ,python-pytest)))
+     (list python-future
+           python-gffutils
+           python-hicmatrix
+           python-intervaltree
+           python-matplotlib
+           python-numpy
+           python-pybigwig
+           python-pysam
+           python-tqdm))
+    (native-inputs
+     (list python-pytest))
     (home-page "https://pygenometracks.readthedocs.io")
     (synopsis "Program and library to plot beautiful genome browser tracks")
     (description
@@ -12651,10 +12384,7 @@ pyGenomeTracks can make plots with or without Hi-C data.")
     (build-system python-build-system)
     (arguments `(#:tests? #false)) ; there are none
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-scipy" ,python-scipy)
-       ("python-scikit-learn" ,python-scikit-learn)))
+     (list python-numpy python-pandas python-scipy python-scikit-learn))
     (home-page "https://github.com/hiclib/iced")
     (synopsis "ICE normalization")
     (description "This is a package for normalizing Hi-C contact counts
@@ -12688,11 +12418,8 @@ efficiently.")
                        (list "test_data/hic2cool_0.4.2_single_res.cool"
                              "test_data/hic2cool_0.7.0_multi_res.mcool")))))))
     (propagated-inputs
-     `(("python-cooler" ,python-cooler)
-       ("python-h5py" ,python-h5py)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-scipy" ,python-scipy)))
+     (list python-cooler python-h5py python-numpy python-pandas
+           python-scipy))
     (home-page "https://github.com/4dn-dcic/hic2cool")
     (synopsis "Converter for .hic and .cool files")
     (description
@@ -12717,11 +12444,7 @@ matrices.")
     (properties `((upstream-name . "poRe")))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-bit64" ,r-bit64)
-       ("r-data-table" ,r-data-table)
-       ("r-rhdf5" ,r-rhdf5)
-       ("r-shiny" ,r-shiny)
-       ("r-svdialogs" ,r-svdialogs)))
+     (list r-bit64 r-data-table r-rhdf5 r-shiny r-svdialogs))
     (home-page "https://sourceforge.net/projects/rpore/")
     (synopsis "Visualize Nanopore sequencing data")
     (description
@@ -12748,15 +12471,15 @@ sequencing data.")
                   "0w8bsq5myiwkfhh83nm6is5ichiyvwa1axx2szvxnzq39x6knf66"))))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-annotationdbi" ,r-annotationdbi)
-         ("r-assertthat" ,r-assertthat)
-         ("r-biobase" ,r-biobase)
-         ("r-biocmanager" ,r-biocmanager)
-         ("r-digest" ,r-digest)
-         ("r-pkgmaker" ,r-pkgmaker)
-         ("r-plyr" ,r-plyr)
-         ("r-reshape2" ,r-reshape2)
-         ("r-stringr" ,r-stringr)))
+       (list r-annotationdbi
+             r-assertthat
+             r-biobase
+             r-biocmanager
+             r-digest
+             r-pkgmaker
+             r-plyr
+             r-reshape2
+             r-stringr))
       (home-page "https://github.com/renozao/xbioc/")
       (synopsis "Extra base functions for Bioconductor")
       (description "This package provides extra utility functions to perform
@@ -12781,12 +12504,12 @@ provided by Bioconductor packages.")
                   "128syf9v39gk0z3ip000qpsjbg6l1siyq6c8b0hz41dzg5achyb3"))))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-formula" ,r-formula)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-pkgmaker" ,r-pkgmaker)
-         ("r-plyr" ,r-plyr)
-         ("r-rngtools" ,r-rngtools)
-         ("r-scales" ,r-scales)))
+       (list r-formula
+             r-ggplot2
+             r-pkgmaker
+             r-plyr
+             r-rngtools
+             r-scales))
       (home-page "https://github.com/shenorrLab/csSAM/")
       (synopsis "Cell type-specific statistical analysis of microarray")
       (description "This package implements the method csSAM that computes
@@ -12812,23 +12535,23 @@ SAM.")
                   "1prw13wa20f7wlc3gkkls66n1kxz8d28qrb8icfqdwdnnv8w5qg8"))))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-abind" ,r-abind)
-         ("r-annotationdbi" ,r-annotationdbi)
-         ("r-biobase" ,r-biobase)
-         ("r-cssam" ,r-cssam)
-         ("r-dplyr" ,r-dplyr)
-         ("r-e1071" ,r-e1071)
-         ("r-edger" ,r-edger)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-nmf" ,r-nmf)
-         ("r-openxlsx" ,r-openxlsx)
-         ("r-pkgmaker" ,r-pkgmaker)
-         ("r-plyr" ,r-plyr)
-         ("r-preprocesscore" ,r-preprocesscore)
-         ("r-rngtools" ,r-rngtools)
-         ("r-scales" ,r-scales)
-         ("r-stringr" ,r-stringr)
-         ("r-xbioc" ,r-xbioc)))
+       (list r-abind
+             r-annotationdbi
+             r-biobase
+             r-cssam
+             r-dplyr
+             r-e1071
+             r-edger
+             r-ggplot2
+             r-nmf
+             r-openxlsx
+             r-pkgmaker
+             r-plyr
+             r-preprocesscore
+             r-rngtools
+             r-scales
+             r-stringr
+             r-xbioc))
       (home-page "https://github.com/shenorrLab/bseqsc")
       (synopsis "Deconvolution of bulk sequencing experiments using single cell data")
       (description "BSeq-sc is a bioinformatics analysis pipeline that
@@ -12892,13 +12615,10 @@ Barcoding Kit or Rapid Barcoding Kit.")
       ;; requires python >=2.7, <3.0, and the same for python dependencies
       (arguments `(#:python ,python-2))
       (inputs
-       `(("hdf5" ,hdf5)))
+       (list hdf5))
       (propagated-inputs
-       `(("python-dateutil" ,python2-dateutil)
-         ("python-h5py" ,python2-h5py)
-         ("python-matplotlib" ,python2-matplotlib)
-         ("python-pandas" ,python2-pandas)
-         ("python-seaborn" ,python2-seaborn)))
+       (list python2-dateutil python2-h5py python2-matplotlib
+             python2-pandas python2-seaborn))
       (home-page "https://poretools.readthedocs.io")
       (synopsis "Toolkit for working with nanopore sequencing data")
       (description
@@ -12966,14 +12686,14 @@ of the Hierarchical Data Format (HDF5) standard.")
                 (list "JAMM.sh" "SignalGenerator.sh")))
              #t)))))
     (inputs
-     `(("bash" ,bash)
-       ("coreutils" ,coreutils)
-       ("gawk" ,gawk)
-       ("perl" ,perl)
-       ("r-minimal" ,r-minimal)
-       ;;("r-parallel" ,r-parallel)
-       ("r-signal" ,r-signal)
-       ("r-mclust" ,r-mclust)))
+     (list bash
+           coreutils
+           gawk
+           perl
+           r-minimal
+           ;;("r-parallel" ,r-parallel)
+           r-signal
+           r-mclust))
     (home-page "https://github.com/mahmoudibrahim/JAMM")
     (synopsis "Peak finder for NGS datasets")
     (description
@@ -13038,63 +12758,59 @@ datasets.")
                         (string-append bin "ngless-" ,version "-bwa"))
                #t))))))
     (inputs
-     `(("prodigal" ,prodigal)
-       ("bwa" ,bwa)
-       ("samtools" ,samtools)
-       ("minimap2" ,minimap2)
-       ("ghc-aeson" ,ghc-aeson)
-       ("ghc-ansi-terminal" ,ghc-ansi-terminal)
-       ("ghc-async" ,ghc-async)
-       ("ghc-atomic-write" ,ghc-atomic-write)
-       ("ghc-bytestring-lexing" ,ghc-bytestring-lexing)
-       ("ghc-conduit" ,ghc-conduit)
-       ("ghc-conduit-algorithms" ,ghc-conduit-algorithms)
-       ("ghc-conduit-extra" ,ghc-conduit-extra)
-       ("ghc-configurator" ,ghc-configurator)
-       ("ghc-convertible" ,ghc-convertible)
-       ("ghc-data-default" ,ghc-data-default)
-       ("ghc-diagrams-core" ,ghc-diagrams-core)
-       ("ghc-diagrams-lib" ,ghc-diagrams-lib)
-       ("ghc-diagrams-svg" ,ghc-diagrams-svg)
-       ("ghc-double-conversion" ,ghc-double-conversion)
-       ("ghc-edit-distance" ,ghc-edit-distance)
-       ("ghc-either" ,ghc-either)
-       ("ghc-errors" ,ghc-errors)
-       ("ghc-extra" ,ghc-extra)
-       ("ghc-filemanip" ,ghc-filemanip)
-       ("ghc-file-embed" ,ghc-file-embed)
-       ("ghc-gitrev" ,ghc-gitrev)
-       ("ghc-hashtables" ,ghc-hashtables)
-       ("ghc-http-conduit" ,ghc-http-conduit)
-       ("ghc-inline-c" ,ghc-inline-c)
-       ("ghc-inline-c-cpp" ,ghc-inline-c-cpp)
-       ("ghc-int-interval-map" ,ghc-int-interval-map)
-       ("ghc-missingh" ,ghc-missingh)
-       ("ghc-optparse-applicative" ,ghc-optparse-applicative)
-       ("ghc-regex" ,ghc-regex)
-       ("ghc-safe" ,ghc-safe)
-       ("ghc-safeio" ,ghc-safeio)
-       ("ghc-strict" ,ghc-strict)
-       ("ghc-tar" ,ghc-tar)
-       ("ghc-tar-conduit" ,ghc-tar-conduit)
-       ("ghc-unliftio" ,ghc-unliftio)
-       ("ghc-unliftio-core" ,ghc-unliftio-core)
-       ("ghc-vector" ,ghc-vector)
-       ("ghc-yaml" ,ghc-yaml)
-       ("ghc-zlib" ,ghc-zlib)))
+     (list prodigal
+           bwa
+           samtools
+           minimap2
+           ghc-aeson
+           ghc-ansi-terminal
+           ghc-async
+           ghc-atomic-write
+           ghc-bytestring-lexing
+           ghc-conduit
+           ghc-conduit-algorithms
+           ghc-conduit-extra
+           ghc-configurator
+           ghc-convertible
+           ghc-data-default
+           ghc-diagrams-core
+           ghc-diagrams-lib
+           ghc-diagrams-svg
+           ghc-double-conversion
+           ghc-edit-distance
+           ghc-either
+           ghc-errors
+           ghc-extra
+           ghc-filemanip
+           ghc-file-embed
+           ghc-gitrev
+           ghc-hashtables
+           ghc-http-conduit
+           ghc-inline-c
+           ghc-inline-c-cpp
+           ghc-int-interval-map
+           ghc-missingh
+           ghc-optparse-applicative
+           ghc-regex
+           ghc-safe
+           ghc-safeio
+           ghc-strict
+           ghc-tar
+           ghc-tar-conduit
+           ghc-unliftio
+           ghc-unliftio-core
+           ghc-vector
+           ghc-yaml
+           ghc-zlib))
     (propagated-inputs
-     `(("r-r6" ,r-r6)
-       ("r-hdf5r" ,r-hdf5r)
-       ("r-iterators" ,r-iterators)
-       ("r-itertools" ,r-itertools)
-       ("r-matrix" ,r-matrix)))
-    (native-inputs
-     `(("ghc-hpack" ,ghc-hpack)
-       ("ghc-quickcheck" ,ghc-quickcheck)
-       ("ghc-test-framework" ,ghc-test-framework)
-       ("ghc-test-framework-hunit",ghc-test-framework-hunit)
-       ("ghc-test-framework-quickcheck2" ,ghc-test-framework-quickcheck2)
-       ("ghc-test-framework-th" ,ghc-test-framework-th)))
+     (list r-r6 r-hdf5r r-iterators r-itertools r-matrix))
+    (native-inputs
+     (list ghc-hpack
+           ghc-quickcheck
+           ghc-test-framework
+           ghc-test-framework-hunit
+           ghc-test-framework-quickcheck2
+           ghc-test-framework-th))
     (home-page "https://ngless.embl.de/")
     (synopsis "DSL for processing next-generation sequencing data")
     (description "Ngless is a domain-specific language for
@@ -13117,17 +12833,14 @@ datasets.")
           (sha256 (base32 "0fd728b5if89vj5j4f9y7k0b2xv2ycz5a21iy15wbdcf5bhim7i8"))))
       (build-system haskell-build-system)
       (inputs
-        `(("ghc-either" ,ghc-either)
-          ("ghc-primitive" ,ghc-primitive)
-          ("ghc-vector" ,ghc-vector)
-          ("ghc-vector-algorithms" ,ghc-vector-algorithms)))
+        (list ghc-either ghc-primitive ghc-vector ghc-vector-algorithms))
       (native-inputs
-        `(("ghc-hedgehog" ,ghc-hedgehog)
-          ("ghc-tasty" ,ghc-tasty)
-          ("ghc-tasty-hedgehog" ,ghc-tasty-hedgehog)
-          ("ghc-tasty-hunit" ,ghc-tasty-hunit)
-          ("ghc-tasty-quickcheck" ,ghc-tasty-quickcheck)
-          ("ghc-tasty-th" ,ghc-tasty-th)))
+        (list ghc-hedgehog
+              ghc-tasty
+              ghc-tasty-hedgehog
+              ghc-tasty-hunit
+              ghc-tasty-quickcheck
+              ghc-tasty-th))
       (home-page "https://github.com/luispedro/interval-to-int#readme")
       (synopsis "Interval map structure in Haskell")
       (description "An interval map structure that is optimized for low
@@ -13300,17 +13013,17 @@ polymorphisms) and indels with respect to a reference genome and more.")
         (base32 "0g2f78k68yglmj4fsfmgs8idqv3di9aj53fg0ld0hqljg8chhh82"))))
     (build-system python-build-system)
     (propagated-inputs
-     `(("python-biopython" ,python-biopython)
-       ("python-future" ,python-future)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-numpy" ,python-numpy)
-       ("python-reportlab" ,python-reportlab)
-       ("python-pandas" ,python-pandas)
-       ("python-pysam" ,python-pysam)
-       ("python-pyfaidx" ,python-pyfaidx)
-       ("python-scipy" ,python-scipy)
-       ;; R packages
-       ("r-dnacopy" ,r-dnacopy)))
+     (list python-biopython
+           python-future
+           python-matplotlib
+           python-numpy
+           python-reportlab
+           python-pandas
+           python-pysam
+           python-pyfaidx
+           python-scipy
+           ;; R packages
+           r-dnacopy))
     (home-page "https://cnvkit.readthedocs.org/")
     (synopsis "Copy number variant detection from targeted DNA sequencing")
     (description
@@ -13337,11 +13050,11 @@ Torrent.")
     (build-system python-build-system)
     (arguments '(#:tests? #false)) ; there are none
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)))
+     (list python-numpy))
     (inputs
-     `(("fftw" ,fftw)))
+     (list fftw))
     (native-inputs
-     `(("python-cython" ,python-cython)))
+     (list python-cython))
     (home-page "https://github.com/KlugerLab/pyFIt-SNE")
     (synopsis "FFT-accelerated Interpolation-based t-SNE")
     (description
@@ -13410,10 +13123,8 @@ is a Cython wrapper for FIt-SNE.")
              #t)))
        #:jdk ,openjdk11))
     (inputs
-     `(("gawk" ,gawk)
-       ("java-eclipse-jdt-core" ,java-eclipse-jdt-core)
-       ("java-eclipse-jdt-compiler-apt" ,java-eclipse-jdt-compiler-apt)
-       ("java-openmpi" ,java-openmpi)))
+     (list gawk java-eclipse-jdt-core java-eclipse-jdt-compiler-apt
+           java-openmpi))
     (home-page "https://sourceforge.net/projects/bbmap/")
     (synopsis "Aligner and other tools for short sequencing reads")
     (description
@@ -13468,8 +13179,7 @@ to an artifact/contaminant file.")
                (install-file "Manual.pdf" doc)
                (install-file "Columbus_manual.pdf" doc)))))))
     (inputs
-     `(("openmpi" ,openmpi)
-       ("zlib" ,zlib)))
+     (list openmpi zlib))
     (native-inputs
      `(("texlive" ,(texlive-updmap.cfg (list texlive-latex-graphics
                                              texlive-fonts-ec
@@ -13501,19 +13211,19 @@ repeated areas between contigs.")
         '(for-each delete-file (find-files "." "\\.c")))))
     (build-system python-build-system)
     (native-inputs
-     `(("python-joblib" ,python-joblib)))
+     (list python-joblib))
     (propagated-inputs
-     `(("python-click" ,python-click)
-       ("python-cython" ,python-cython)
-       ("python-h5py" ,python-h5py)
-       ("python-loompy" ,python-loompy)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-numba" ,python-numba)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-pysam" ,python-pysam)
-       ("python-scikit-learn" ,python-scikit-learn)
-       ("python-scipy" ,python-scipy)))
+     (list python-click
+           python-cython
+           python-h5py
+           python-loompy
+           python-matplotlib
+           python-numba
+           python-numpy
+           python-pandas
+           python-pysam
+           python-scikit-learn
+           python-scipy))
     (home-page "https://github.com/velocyto-team/velocyto.py")
     (synopsis "RNA velocity analysis for single cell RNA-seq data")
     (description
@@ -13565,14 +13275,14 @@ includes a command line tool and an analysis pipeline.")
                  `("R_LIBS_SITE" ":" prefix (,(getenv "R_LIBS_SITE")))))
              #t)))))
     (inputs
-     `(("htslib" ,htslib)
-       ("r-minimal" ,r-minimal)
-       ("r-circlize" ,r-circlize)
-       ("r-genomicalignments" ,r-genomicalignments)
-       ("r-genomicranges" ,r-genomicranges)
-       ("samtools" ,samtools)
-       ("star" ,star)
-       ("zlib" ,zlib)))
+     (list htslib
+           r-minimal
+           r-circlize
+           r-genomicalignments
+           r-genomicranges
+           samtools
+           star
+           zlib))
     (home-page "https://github.com/suhrig/arriba")
     (synopsis "Gene fusion detection from RNA-Seq data ")
     (description
@@ -13611,7 +13321,7 @@ tools which build on STAR, Arriba does not require to reduce the
        (modify-phases %standard-phases
          (delete 'configure))))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://adapterremoval.readthedocs.io/")
     (synopsis "Rapid sequence adapter trimming, identification, and read merging")
     (description
@@ -13730,7 +13440,7 @@ let before_space s =
          ("ocamlbuild" ,(package-with-ocaml4.07 ocamlbuild))
          ("pkg-config" ,pkg-config)))
       (propagated-inputs
-       `(("pplacer-scripts" ,pplacer-scripts)))
+       (list pplacer-scripts))
       (synopsis "Phylogenetic placement of biological sequences")
       (description
        "Pplacer places query sequences on a fixed reference phylogenetic tree
@@ -13800,11 +13510,8 @@ downstream analysis.")
            (lambda _
              (setenv "HOME" "/tmp"))))))
     (inputs
-     `(("python-dendropy" ,python-dendropy)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-numpy" ,python-numpy)
-       ("python-pysam" ,python-pysam)
-       ("python-scipy" ,python-scipy)))
+     (list python-dendropy python-matplotlib python-numpy python-pysam
+           python-scipy))
     (home-page "https://ecogenomics.github.io/CheckM/")
     (synopsis "Assess the quality of putative genome bins")
     (description
@@ -13836,14 +13543,14 @@ proximity within a reference genome.")
          "08y3vz1vcx09whmbsn722lcs6jl9wyrh9i4p3k8j4cb1i32bij4a"))))
     (build-system python-build-system)
     (inputs
-     `(("python-pandas" ,python-pandas)
-       ("python-future" ,python-future)
-       ("python-scipy" ,python-scipy)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-regex" ,python-regex)
-       ("python-pysam" ,python-pysam)))
+     (list python-pandas
+           python-future
+           python-scipy
+           python-matplotlib
+           python-regex
+           python-pysam))
     (native-inputs
-     `(("python-cython" ,python-cython)))
+     (list python-cython))
     (home-page "https://github.com/CGATOxford/UMI-tools")
     (synopsis "Tools for analyzing unique modular identifiers")
     (description "This package provides tools for dealing with @dfn{Unique
@@ -13883,12 +13590,9 @@ on the needs of the user.")
        (modify-phases %standard-phases
          (delete 'configure))))
     (inputs
-     `(("boost" ,boost)
-       ("htslib" ,htslib)
-       ("ncurses" ,ncurses)
-       ("zlib" ,zlib)))
+     (list boost htslib ncurses zlib))
     (native-inputs
-     `(("lcov" ,lcov)))
+     (list lcov))
     (home-page "https://github.com/ParkerLab/ataqv")
     (synopsis "Toolkit for quality control and visualization of ATAC-seq data")
     (description "This package provides a toolkit for measuring and comparing
@@ -13912,13 +13616,13 @@ might be caused by ATAC-seq library prep or sequencing.  The main program,
         (base32 "08438h16cfry5kqh3y9hs8q1b1a8bxhblsm75knviz5r6q0n1jxh"))))
     (build-system r-build-system)
     (propagated-inputs
-     `(("r-mass" ,r-mass)
-       ("r-dplyr" ,r-dplyr)
-       ("r-tidyr" ,r-tidyr)
-       ("r-purrr" ,r-purrr)
-       ("r-readr" ,r-readr)
-       ("r-magrittr" ,r-magrittr)
-       ("r-ggplot2" ,r-ggplot2)))
+     (list r-mass
+           r-dplyr
+           r-tidyr
+           r-purrr
+           r-readr
+           r-magrittr
+           r-ggplot2))
     (home-page "https://github.com/kcha/psiplot")
     (synopsis "Plot percent spliced-in values of alternatively-spliced exons")
     (description
@@ -13952,10 +13656,10 @@ are generated using @code{ggplot2}.")
          ;; disable building them.
          "-DENABLE_PYTHON=OFF")))
     (inputs
-     `(;("hdf5" ,hdf5-1.10)
-       ("zstd" ,zstd "lib")))
+     (list ;("hdf5" ,hdf5-1.10)
+           `(,zstd "lib")))
     (native-inputs
-     `(("googlebenchmark" ,googlebenchmark)))
+     (list googlebenchmark))
     (home-page "https://github.com/nanoporetech/vbz_compression/")
     (synopsis "VBZ compression plugin for nanopore signal data")
     (description
@@ -13994,12 +13698,9 @@ effective when applied to the signal dataset.")
                             "/hdf5/lib/plugin/libvbz_hdf_plugin.so")
                            "ont_fast5_api/vbz_plugin/"))))))
     (inputs
-     `(("vbz-compression" ,vbz-compression)))
+     (list vbz-compression))
     (propagated-inputs
-     `(("python-numpy" ,python-numpy)
-       ("python-h5py" ,python-h5py)
-       ("python-packaging" ,python-packaging)
-       ("python-progressbar33" ,python-progressbar33)))
+     (list python-numpy python-h5py python-packaging python-progressbar33))
     (home-page "https://github.com/nanoporetech/ont_fast5_api")
     (synopsis "Interface to HDF5 files of the Oxford Nanopore fast5 file format")
     (description
@@ -14035,13 +13736,13 @@ and reflect the fast5 file schema, and tools to convert between
                (substitute* "setup.py"
                  ((", <3.0") ""))))))) ; matplotlib
       (inputs
-       `(("python-matplotlib" ,python-matplotlib)
-         ("python-networkx" ,python-networkx)
-         ("python-numpy" ,python-numpy)
-         ("python-pybigwig" ,python-pybigwig)
-         ("python-biopython" ,python-biopython-1.73)
-         ("python-scikit-learn" ,python-scikit-learn)
-         ("python-scipy" ,python-scipy)))
+       (list python-matplotlib
+             python-networkx
+             python-numpy
+             python-pybigwig
+             python-biopython-1.73
+             python-scikit-learn
+             python-scipy))
       (home-page "https://github.com/phoenixding/tbsp/")
       (synopsis "SNP-based trajectory inference")
       (description
@@ -14072,8 +13773,7 @@ mutations from scRNA-Seq data.")
          (delete-file-recursively "htslib") #t))))
    (build-system gnu-build-system)
    (inputs
-    `(("htslib" ,htslib)
-      ("zlib" ,zlib)))
+    (list htslib zlib))
    (arguments
     `(#:tests? #f ; There are no tests to run.
       #:phases
@@ -14249,7 +13949,7 @@ combinatorial configurations.\", G. Ehrlich - Journal of the ACM (JACM),
                (let ((bin (string-append (assoc-ref outputs "out") "/bin")))
                  (install-file "fsom" bin)))))))
       (native-inputs
-       `(("gcc" ,gcc-6)))
+       (list gcc-6))
       (home-page "https://github.com/ekg/fsom")
       (synopsis "Manage SOM (Self-Organizing Maps) neural networks")
       (description "A tiny C library for managing SOM (Self-Organizing Maps)
@@ -14360,15 +14060,15 @@ library automatically handles index file generation and use.")
            #t))))
     (build-system cmake-build-system)
     (inputs
-     `(("bzip2" ,bzip2)
-       ("htslib" ,htslib)
-       ("fastahack" ,fastahack)
-       ("perl" ,perl)
-       ("python" ,python)
-       ("smithwaterman" ,smithwaterman)
-       ("tabixpp" ,tabixpp)
-       ("xz" ,xz)
-       ("zlib" ,zlib)))
+     (list bzip2
+           htslib
+           fastahack
+           perl
+           python
+           smithwaterman
+           tabixpp
+           xz
+           zlib))
     (native-inputs
      `(("pkg-config" ,pkg-config)
        ;; Submodules.
@@ -14453,11 +14153,7 @@ manipulations on VCF files.")
                   #t))))
     (build-system meson-build-system)
     (inputs
-     `(("fastahack" ,fastahack)
-       ("htslib" ,htslib)
-       ("smithwaterman" ,smithwaterman)
-       ("tabixpp" ,tabixpp)
-       ("vcflib" ,vcflib)))
+     (list fastahack htslib smithwaterman tabixpp vcflib))
     (native-inputs
      `(("bash-tap" ,bash-tap)
        ("bc" ,bc)
@@ -14574,24 +14270,24 @@ pairs.")
            "16wqf70j7rd7pay2q513iyz12i8n9vrpg1bisah4lddbcpx5dz1n"))))
       (build-system r-build-system)
       (inputs
-       `(("boost" ,boost)))
+       (list boost))
       (propagated-inputs
-       `(("r-hdf5r" ,r-hdf5r)
-         ("r-mass" ,r-mass)
-         ("r-mgcv" ,r-mgcv)
-         ("r-pcamethods" ,r-pcamethods)
-         ("r-rcpp" ,r-rcpp)
-         ("r-rcpparmadillo" ,r-rcpparmadillo)
-         ;; Suggested packages
-         ("r-rtsne" ,r-rtsne)
-         ("r-cluster" ,r-cluster)
-         ("r-abind" ,r-abind)
-         ("r-h5" ,r-h5)
-         ("r-biocgenerics" ,r-biocgenerics)
-         ("r-genomicalignments" ,r-genomicalignments)
-         ("r-rsamtools" ,r-rsamtools)
-         ("r-edger" ,r-edger)
-         ("r-igraph" ,r-igraph)))
+       (list r-hdf5r
+             r-mass
+             r-mgcv
+             r-pcamethods
+             r-rcpp
+             r-rcpparmadillo
+             ;; Suggested packages
+             r-rtsne
+             r-cluster
+             r-abind
+             r-h5
+             r-biocgenerics
+             r-genomicalignments
+             r-rsamtools
+             r-edger
+             r-igraph))
       (home-page "https://velocyto.org")
       (synopsis "RNA velocity estimation in R")
       (description
@@ -14629,10 +14325,8 @@ patterns.")
                (("install MethylDackel \\$\\(prefix\\)" match)
                 (string-append "install -d $(prefix); " match))))))))
     (inputs
-     `(("curl" ,curl) ; XXX: needed by libbigwig
-       ("htslib" ,htslib-1.9)
-       ("libbigwig" ,libbigwig)
-       ("zlib" ,zlib)))
+     (list curl ; XXX: needed by libbigwig
+           htslib-1.9 libbigwig zlib))
     ;; Needed for tests
     (native-inputs
      `(("python" ,python-wrapper)))
@@ -14702,9 +14396,9 @@ containing the reference genome as well.")
              ;; unknown reasons.
              (invoke "make" "-C" "test" "msa_view"))))))
     (inputs
-     `(("clapack" ,clapack)))
+     (list clapack))
     (native-inputs
-     `(("perl" ,perl)))
+     (list perl))
     (home-page "http://compgen.cshl.edu/phast/")
     (synopsis "Phylogenetic analysis with space/time models")
     (description
@@ -14749,15 +14443,15 @@ alignments, trees and genomic annotations.")
                          (find-files "." "\\.gz"))
                #t)))))
       (propagated-inputs
-       `(("python-argcomplete" ,python-argcomplete)
-         ("python-argh" ,python-argh)
-         ("python-biopython" ,python-biopython)
-         ("python-pybedtools" ,python-pybedtools)
-         ("python-pyfaidx" ,python-pyfaidx)
-         ("python-simplejson" ,python-simplejson)
-         ("python-six" ,python-six)))
+       (list python-argcomplete
+             python-argh
+             python-biopython
+             python-pybedtools
+             python-pyfaidx
+             python-simplejson
+             python-six))
       (native-inputs
-       `(("python-nose" , python-nose)))
+       (list python-nose))
       (home-page "https://github.com/daler/gffutils")
       (synopsis "Tool for manipulation of GFF and GTF files")
       (description
@@ -14790,7 +14484,7 @@ than is possible with plain-text methods alone.")
      `(("java-commons-lang2" ,java-commons-lang)
        ("java-args4j" ,java-args4j)))
     (native-inputs
-     `(("java-junit" ,java-junit)))
+     (list java-junit))
     (home-page "https://github.com/cbg-ethz/InDelFixer/")
     (synopsis "Iterative and sensitive NGS sequence aligner")
     (description "InDelFixer is a sensitive aligner for 454, Illumina and
@@ -14827,10 +14521,9 @@ The output is in SAM format.")
                                #$(this-package-input "libxml2")
                                "/include/libxml2"))))
     (propagated-inputs
-     `(("libxml2" ,libxml2)))
+     (list libxml2))
     (native-inputs
-     `(("check" ,check-0.14)
-       ("swig" ,swig)))
+     (list check-0.14 swig))
     (home-page "http://sbml.org/Software/libSBML")
     (synopsis "Process SBML files and data streams")
     (description "LibSBML is a library to help you read, write, manipulate,
@@ -14915,12 +14608,12 @@ international community.")
                                (install-file script bin))
                              scripts)))))))))
     (inputs
-     `(("gzip" ,gzip)
-       ("perl" ,perl)
-       ("rsync" ,rsync)
-       ("sed" ,sed)
-       ("wget" ,wget)
-       ("which" ,which)))
+     (list gzip
+           perl
+           rsync
+           sed
+           wget
+           which))
   (home-page "https://github.com/DerrickWood/kraken2")
   (synopsis "Taxonomic sequence classification system")
   (description "Kraken is a taxonomic sequence classifier that assigns
@@ -14952,9 +14645,7 @@ genomes known to contain a given k-mer.")
        ("python" ,python-wrapper)
        ("zlib" ,zlib)))
     (native-inputs
-     `(("autoconf" ,autoconf)
-       ("automake" ,automake)
-       ("which" ,which)))
+     (list autoconf automake which))
     (home-page "https://csb5.github.io/lofreq/")
     (synopsis "Sensitive variant calling from sequencing data ")
     (description "LoFreq is a fast and sensitive variant-caller for inferring
@@ -14980,11 +14671,9 @@ usually ignored by other methods or only used for filtering.")
     (build-system gnu-build-system)
     (arguments `(#:parallel-tests? #false)) ; not supported
     (inputs
-     `(("htslib" ,htslib)
-       ("zlib" ,zlib)))
+     (list htslib zlib))
     (native-inputs
-     `(("autoconf" ,autoconf)
-       ("automake" ,automake)))
+     (list autoconf automake))
     (home-page "https://andersen-lab.github.io/ivar/html/")
     (synopsis "Tools for amplicon-based sequencing")
     (description "iVar is a computational package that contains functions
@@ -15008,7 +14697,7 @@ broadly useful for viral amplicon-based sequencing. ")
     (build-system python-build-system)
     (arguments `(#:tests? #false)) ; the tests access the web
     (native-inputs
-     `(("python-pytest" ,python-pytest)))
+     (list python-pytest))
     (home-page "https://github.com/konstantint/pyliftover")
     (synopsis "Python implementation of UCSC liftOver genome coordinate conversion")
     (description
@@ -15055,15 +14744,15 @@ coordinates between different assemblies.")
        ("hostname" ,inetutils)
        ("openssl" ,openssl)))
     (inputs
-     `(("time" ,time)))
+     (list time))
     (propagated-inputs
-     `(("python-apsw" ,python-apsw)
-       ("python-gevent" ,python-gevent)
-       ("python-pandas" ,python-pandas)
-       ("python-paramiko" ,python-paramiko)
-       ("python-pyyaml" ,python-pyyaml)
-       ("python-ruffus" ,python-ruffus)
-       ("python-sqlalchemy" ,python-sqlalchemy)))
+     (list python-apsw
+           python-gevent
+           python-pandas
+           python-paramiko
+           python-pyyaml
+           python-ruffus
+           python-sqlalchemy))
     (home-page "https://github.com/cgat-developers/cgat-core")
     (synopsis "Computational genomics analysis toolkit")
     (description
@@ -15159,7 +14848,7 @@ large-scale data-analysis.")
        ("python-scikit-learn" ,python-scikit-learn)
        ("r-minimal" ,r-minimal)))
     (native-inputs
-     `(("perl-module-build" ,perl-module-build)))
+     (list perl-module-build))
     (home-page "https://github.com/dekkerlab/cworld-dekker")
     (synopsis "Utility and analysis scripts for 3C, 4C, 5C, and Hi-C data")
     (description "This package is a collection of Perl, Python, and R
@@ -15275,16 +14964,16 @@ my @test_files = map {\"$dirname\\/t\\/\".$_} grep {!/^\\./ && /\\.t$/} readdir
 runtests(@test_files);
 "))))))))
       (inputs
-       `(("bioperl-minimal" ,bioperl-minimal)
-         ("perl-bio-db-hts" ,perl-bio-db-hts)
-         ("perl-dbi" ,perl-dbi)
-         ("perl-dbd-mysql" ,perl-dbd-mysql)
-         ("perl-libwww" ,perl-libwww)
-         ("perl-http-tiny" ,perl-http-tiny)
-         ("perl-json" ,perl-json)
-         ("which" ,which)))
+       (list bioperl-minimal
+             perl-bio-db-hts
+             perl-dbi
+             perl-dbd-mysql
+             perl-libwww
+             perl-http-tiny
+             perl-json
+             which))
       (propagated-inputs
-       `(("kentutils" ,kentutils)))
+       (list kentutils))
       (native-inputs
        `(("unzip" ,unzip)
          ("perl" ,perl)
@@ -15330,39 +15019,39 @@ translates between different variant encodings.")
            "1yihhrv7zs87ax61la1nb4y12lg3knraw4b20k5digbcwm8488lb"))))
       (properties `((upstream-name . "Signac")))
       (build-system r-build-system)
-      (inputs `(("zlib" ,zlib)))
+      (inputs (list zlib))
       (propagated-inputs
-       `(("r-annotationfilter" ,r-annotationfilter)
-         ("r-biocgenerics" ,r-biocgenerics)
-         ("r-biostrings" ,r-biostrings)
-         ("r-biovizbase" ,r-biovizbase)
-         ("r-data-table" ,r-data-table)
-         ("r-dplyr" ,r-dplyr)
-         ("r-fastmatch" ,r-fastmatch)
-         ("r-future" ,r-future)
-         ("r-future-apply" ,r-future-apply)
-         ("r-genomeinfodb" ,r-genomeinfodb)
-         ("r-genomicranges" ,r-genomicranges)
-         ("r-ggbio" ,r-ggbio)
-         ("r-ggforce" ,r-ggforce)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-ggrepel" ,r-ggrepel)
-         ("r-ggseqlogo" ,r-ggseqlogo)
-         ("r-iranges" ,r-iranges)
-         ("r-irlba" ,r-irlba)
-         ("r-lsa" ,r-lsa)
-         ("r-matrix" ,r-matrix)
-         ("r-patchwork" ,r-patchwork)
-         ("r-pbapply" ,r-pbapply)
-         ("r-rcpp" ,r-rcpp)
-         ("r-rcpproll" ,r-rcpproll)
-         ("r-rsamtools" ,r-rsamtools)
-         ("r-s4vectors" ,r-s4vectors)
-         ("r-scales" ,r-scales)
-         ("r-seurat" ,r-seurat)
-         ("r-seuratobject" ,r-seuratobject)
-         ("r-stringi" ,r-stringi)
-         ("r-tidyr" ,r-tidyr)))
+       (list r-annotationfilter
+             r-biocgenerics
+             r-biostrings
+             r-biovizbase
+             r-data-table
+             r-dplyr
+             r-fastmatch
+             r-future
+             r-future-apply
+             r-genomeinfodb
+             r-genomicranges
+             r-ggbio
+             r-ggforce
+             r-ggplot2
+             r-ggrepel
+             r-ggseqlogo
+             r-iranges
+             r-irlba
+             r-lsa
+             r-matrix
+             r-patchwork
+             r-pbapply
+             r-rcpp
+             r-rcpproll
+             r-rsamtools
+             r-s4vectors
+             r-scales
+             r-seurat
+             r-seuratobject
+             r-stringi
+             r-tidyr))
       (home-page "https://github.com/timoast/signac/")
       (synopsis "Analysis of single-cell chromatin data")
       (description
@@ -15386,18 +15075,17 @@ sequence motif analysis.")
          "1023hadgcsgi53kz53ql45207hfizf9sw57z0qij3ay1bx68zbpm"))))
     (build-system python-build-system)
     (native-inputs
-     `(("python-cython" ,python-cython)
-       ("python-nose2" ,python-nose2)))
+     (list python-cython python-nose2))
     ;; The package mainly consists of a command-line tool, but also has a
     ;; Python-API. Thus these must be propagated.
     (propagated-inputs
-     `(("python-future" ,python-future)
-       ("python-h5py" ,python-h5py)
-       ("python-mappy" ,python-mappy)
-       ("python-numpy" ,python-numpy)
-       ("python-scipy" ,python-scipy)
-       ("python-tqdm" ,python-tqdm)
-       ("python-rpy2" ,python-rpy2)))
+     (list python-future
+           python-h5py
+           python-mappy
+           python-numpy
+           python-scipy
+           python-tqdm
+           python-rpy2))
     (home-page "https://github.com/nanoporetech/tombo")
     (synopsis "Analysis of raw nanopore sequencing data")
     (description "Tombo is a suite of tools primarily for the identification of
@@ -15438,10 +15126,9 @@ for the analysis and visualization of raw nanopore signal.")
               (delete-file-recursively (string-append
                                          (site-packages inputs outputs)
                                          "/vcf/test")))))))
-    (native-inputs `(("python-cython" ,python-cython)))
+    (native-inputs (list python-cython))
     (propagated-inputs
-     `(("python-pysam" ,python-pysam)
-       ("python-rpy2" ,python-rpy2)))
+     (list python-pysam python-rpy2))
     (home-page "https://github.com/jamescasbon/PyVCF")
     (synopsis "Variant Call Format parser for Python")
     (description "This package provides a @acronym{VCF,Variant Call Format}
@@ -15460,9 +15147,7 @@ parser for Python.")
               "1wl2daj0bwrl8fx5xi8j8hfs3mp3vg3qycy66538n032v1qkc6xg"))))
    (build-system python-build-system)
    (inputs
-    `(("python-configparser" ,python-configparser)
-      ("python-pysam" ,python-pysam)
-      ("python-pyvcf" ,python-pyvcf)))
+    (list python-configparser python-pysam python-pyvcf))
    (home-page "https://github.com/mroosmalen/nanosv")
    (synopsis "Structural variation detection tool for Oxford Nanopore data.")
    (description "NanoSV is a software package that can be used to identify
@@ -15484,10 +15169,9 @@ instruments, or Pacific Biosciences RSII or Sequel sequencers.")
          "1z1gy8n56lhriy6hdkh9r82ndikndipq2cy2wh8q185qig4rimr6"))))
     (build-system python-build-system)
     (inputs
-     `(("curl" ,curl)
-       ("zlib" ,zlib)))
+     (list curl zlib))
     (propagated-inputs
-     `(("pybind11" ,pybind11)))
+     (list pybind11))
     (home-page "https://github.com/aidenlab/straw")
     (synopsis "Stream data from .hic files")
     (description "Straw is library which allows rapid streaming of contact
@@ -15520,18 +15204,11 @@ data from @file{.hic} files.  This package provides Python bindings.")
                (with-directory-excursion "/tmp/tests"
                  (invoke "python" "-m" "pytest" "-v"))))))))
     (native-inputs
-     `(("pkg-config" ,pkg-config)
-       ("python-pkgconfig" ,python-pkgconfig)
-       ("python-pytest" ,python-pytest)))
+     (list pkg-config python-pkgconfig python-pytest))
     (inputs
-     `(("libpng" ,libpng)
-       ("openssl" ,openssl)
-       ("zlib" ,zlib)))
+     (list libpng openssl zlib))
     (propagated-inputs
-     `(("python-cython" ,python-cython)
-       ("python-numpy" ,python-numpy)
-       ("python-pandas" ,python-pandas)
-       ("python-six" ,python-six)))
+     (list python-cython python-numpy python-pandas python-six))
     (home-page "https://github.com/nvictus/pybbi")
     (synopsis "Python bindings to UCSC Big Binary file library")
     (description
@@ -15555,8 +15232,7 @@ feature is fast retrieval of range queries into numpy arrays.")
     (build-system python-build-system)
     (arguments '(#:tests? #false)) ; there are none
     (propagated-inputs
-     `(("python-biopython" ,python-biopython)
-       ("python-matplotlib" ,python-matplotlib)))
+     (list python-biopython python-matplotlib))
     (home-page
      "https://github.com/Edinburgh-Genome-Foundry/DnaFeaturesViewer")
     (synopsis "Plot features from DNA sequences")
@@ -15579,28 +15255,28 @@ e.g. from GenBank or Gff files, or Biopython SeqRecords.")
     (build-system python-build-system)
     (arguments '(#:tests? #false)) ; there are none
     (inputs
-     `(("pybind11" ,pybind11)))
+     (list pybind11))
     (propagated-inputs
-     `(("python-cooler" ,python-cooler)
-       ("python-dna-features-viewer" ,python-dna-features-viewer)
-       ("python-fire" ,python-fire)
-       ("python-h5py" ,python-h5py)
-       ("python-intervaltree" ,python-intervaltree)
-       ("python-ipywidgets" ,python-ipywidgets)
-       ("jupyter" ,jupyter)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-nbformat" ,python-nbformat)
-       ("python-numpy" ,python-numpy)
-       ("python-numpydoc" ,python-numpydoc)
-       ("python-pandas" ,python-pandas)
-       ("python-pybbi" ,python-pybbi)
-       ("python-pytest" ,python-pytest)
-       ("python-scipy" ,python-scipy)
-       ("python-statsmodels" ,python-statsmodels)
-       ("python-strawc" ,python-strawc)
-       ("python-svgutils" ,python-svgutils)
-       ("python-termcolor" ,python-termcolor)
-       ("python-voila" ,python-voila)))
+     (list python-cooler
+           python-dna-features-viewer
+           python-fire
+           python-h5py
+           python-intervaltree
+           python-ipywidgets
+           jupyter
+           python-matplotlib
+           python-nbformat
+           python-numpy
+           python-numpydoc
+           python-pandas
+           python-pybbi
+           python-pytest
+           python-scipy
+           python-statsmodels
+           python-strawc
+           python-svgutils
+           python-termcolor
+           python-voila))
     (home-page "https://github.com/GangCaoLab/CoolBox")
     (synopsis "Genomic data visualization toolkit")
     (description
@@ -15648,7 +15324,7 @@ browser.")
                (add-installed-pythonpath inputs outputs)
                (invoke "python" "tests/test_pyspoa.py")))))))
     (propagated-inputs
-     `(("pybind11" ,pybind11)))
+     (list pybind11))
     (native-inputs
      `(("cmake" ,cmake-minimal)))
     (home-page "https://github.com/nanoporetech/pyspoa")
@@ -15685,11 +15361,9 @@ sequences")
          ;; problem with the C sources.
          (delete 'sanity-check))))
     (propagated-inputs
-     `(("python-cffi" ,python-cffi)
-       ("python-setuptools" ,python-setuptools)
-       ("python-wheel" ,python-wheel)))
+     (list python-cffi python-setuptools python-wheel))
     (inputs
-     `(("zlib" ,zlib)))
+     (list zlib))
     (home-page "https://github.com/ACEnglish/bwapy")
     (synopsis "Python bindings to bwa alinger")
     (description "This package provides Python bindings to the bwa mem
@@ -15722,21 +15396,21 @@ aligner.")
              (substitute* "setup.py"
                (("'sklearn',") "")))))))
     (native-inputs
-     `(("python-cython" ,python-cython)))
+     (list python-cython))
     (propagated-inputs
-     `(("python-scikit-learn" ,python-scikit-learn)
-       ("python-scipy" ,python-scipy)
-       ("python-numpy" ,python-numpy)
-       ("python-hmmlearn" ,python-hmmlearn)
-       ("python-pandas" ,python-pandas)
-       ("python-numba" ,python-numba)
-       ("python-anndata" ,python-anndata)
-       ("python-scanpy" ,python-scanpy)
-       ("python-pybedtools" ,python-pybedtools)
-       ("python-pysam" ,python-pysam)
-       ("python-matplotlib" ,python-matplotlib)
-       ("python-seaborn" ,python-seaborn)
-       ("python-coolbox" ,python-coolbox)))
+     (list python-scikit-learn
+           python-scipy
+           python-numpy
+           python-hmmlearn
+           python-pandas
+           python-numba
+           python-anndata
+           python-scanpy
+           python-pybedtools
+           python-pysam
+           python-matplotlib
+           python-seaborn
+           python-coolbox))
     (home-page "https://github.com/BIMSBbioinfo/scregseg")
     (synopsis "Single-cell regulatory landscape segmentation")
     (description "Scregseg (Single-Cell REGulatory landscape SEGmentation) is a
@@ -15795,15 +15469,9 @@ cross-cluster accessibility profiles.")
                (copy-file "megadepth_dynamic"
                           (string-append bin "/megadepth"))))))))
     (native-inputs
-     `(("diffutils" ,diffutils)
-       ("perl" ,perl)
-       ("grep" ,grep)))
+     (list diffutils perl grep))
     (inputs
-     `(("curl" ,curl)
-       ("htslib" ,htslib)
-       ("libdeflate" ,libdeflate)
-       ("libbigwig" ,libbigwig)
-       ("zlib" ,zlib)))
+     (list curl htslib libdeflate libbigwig zlib))
     (home-page "https://github.com/ChristopherWilks/megadepth")
     (synopsis "BigWig and BAM/CRAM related utilities")
     (description "Megadepth is an efficient tool for extracting coverage
@@ -15834,7 +15502,7 @@ both types of files.")
          (lambda _
            (chdir "ASCAT"))))))
    (propagated-inputs
-    `(("r-rcolorbrewer" ,r-rcolorbrewer)))
+    (list r-rcolorbrewer))
    (home-page "https://github.com/VanLoo-lab/ascat/")
    (synopsis "Allele-Specific Copy Number Analysis of Tumors in R")
    (description "This package provides the @acronym{ASCAT,Allele-Specific Copy
@@ -15857,14 +15525,14 @@ ploidy and allele-specific copy number profiles.")
               "0nmcq4c7y5g8h8lxsq9vadz9bj4qgqn118alip520ny6czaxki4h"))))
    (build-system r-build-system)
    (propagated-inputs
-    `(("r-devtools" ,r-devtools)
-      ("r-readr" ,r-readr)
-      ("r-doparallel" ,r-doparallel)
-      ("r-ggplot2" ,r-ggplot2)
-      ("r-rcolorbrewer" ,r-rcolorbrewer)
-      ("r-gridextra" ,r-gridextra)
-      ("r-gtools" ,r-gtools)
-      ("r-ascat" ,r-ascat)))
+    (list r-devtools
+          r-readr
+          r-doparallel
+          r-ggplot2
+          r-rcolorbrewer
+          r-gridextra
+          r-gtools
+          r-ascat))
    (home-page "https://github.com/Wedge-lab/battenberg")
    (synopsis "Subclonal copy number estimation in R")
    (description "This package contains the Battenberg R package for subclonal
@@ -15919,51 +15587,51 @@ value of physical insulation between neighboring domains.")
       (properties `((upstream-name . "Spectre")))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-biobase" ,r-biobase)
-         ("r-biocmanager" ,r-biocmanager)
-         ("r-caret" ,r-caret)
-         ("r-class" ,r-class)
-         ("r-colorramps" ,r-colorramps)
-         ("r-data-table" ,r-data-table)
-         ("r-devtools" ,r-devtools)
-         ("r-dplyr" ,r-dplyr)
-         ("r-exactextractr" ,r-exactextractr)
-         ("r-factoextra" ,r-factoextra)
-         ("r-flowcore" ,r-flowcore)
-         ("r-flowsom" ,r-flowsom)
-         ("r-flowviz" ,r-flowviz)
-         ("r-fnn" ,r-fnn)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-ggpointdensity" ,r-ggpointdensity)
-         ("r-ggpubr" ,r-ggpubr)
-         ("r-ggraph" ,r-ggraph)
-         ("r-ggthemes" ,r-ggthemes)
-         ("r-gridextra" ,r-gridextra)
-         ("r-gridextra" ,r-gridextra)
-         ("r-gtools" ,r-gtools)
-         ("r-hdf5array" ,r-hdf5array)
-         ("r-irlba" ,r-irlba)
-         ("r-pheatmap" ,r-pheatmap)
-         ("r-plyr" ,r-plyr)
-         ("r-qs" ,r-qs)
-         ("r-raster" ,r-raster)
-         ("r-rcolorbrewer" ,r-rcolorbrewer)
-         ("r-rgeos" ,r-rgeos)
-         ("r-rhdf5" ,r-rhdf5)
-         ("r-rstudioapi" ,r-rstudioapi)
-         ("r-rsvd" ,r-rsvd)
-         ("r-rtsne" ,r-rtsne)
-         ("r-s2" ,r-s2)
-         ("r-scales" ,r-scales)
-         ("r-sf" ,r-sf)
-         ("r-sp" ,r-sp)
-         ("r-stars" ,r-stars)
-         ("r-stringr" ,r-stringr)
-         ("r-tidygraph" ,r-tidygraph)
-         ("r-tidyr" ,r-tidyr)
-         ("r-tidyr" ,r-tidyr)
-         ("r-tiff" ,r-tiff)
-         ("r-umap" ,r-umap)))
+       (list r-biobase
+             r-biocmanager
+             r-caret
+             r-class
+             r-colorramps
+             r-data-table
+             r-devtools
+             r-dplyr
+             r-exactextractr
+             r-factoextra
+             r-flowcore
+             r-flowsom
+             r-flowviz
+             r-fnn
+             r-ggplot2
+             r-ggpointdensity
+             r-ggpubr
+             r-ggraph
+             r-ggthemes
+             r-gridextra
+             r-gridextra
+             r-gtools
+             r-hdf5array
+             r-irlba
+             r-pheatmap
+             r-plyr
+             r-qs
+             r-raster
+             r-rcolorbrewer
+             r-rgeos
+             r-rhdf5
+             r-rstudioapi
+             r-rsvd
+             r-rtsne
+             r-s2
+             r-scales
+             r-sf
+             r-sp
+             r-stars
+             r-stringr
+             r-tidygraph
+             r-tidyr
+             r-tidyr
+             r-tiff
+             r-umap))
       (home-page "https://github.com/ImmuneDynamics/Spectre")
       (synopsis "High-dimensional cytometry and imaging analysis")
       (description
@@ -15991,16 +15659,16 @@ cytometry and imaging data.")
       (properties `((upstream-name . "CytoNorm")))
       (build-system r-build-system)
       (propagated-inputs
-       `(("r-cytoml" ,r-cytoml)
-         ("r-dplyr" ,r-dplyr)
-         ("r-emdist" ,r-emdist)
-         ("r-flowcore" ,r-flowcore)
-         ("r-flowsom" ,r-flowsom)
-         ("r-flowworkspace" ,r-flowworkspace)
-         ("r-ggplot2" ,r-ggplot2)
-         ("r-gridextra" ,r-gridextra)
-         ("r-pheatmap" ,r-pheatmap)
-         ("r-stringr" ,r-stringr)))
+       (list r-cytoml
+             r-dplyr
+             r-emdist
+             r-flowcore
+             r-flowsom
+             r-flowworkspace
+             r-ggplot2
+             r-gridextra
+             r-pheatmap
+             r-stringr))
       (home-page "https://github.com/saeyslab/CytoNorm")
       (synopsis "Normalize cytometry data measured across multiple batches")
       (description
@@ -16049,12 +15717,12 @@ interest.")
        ("guile" ,guile-3.0)
        ("guile-libyaml" ,guile-libyaml)))
     (native-inputs
-     `(("pkg-config" ,pkg-config)
-       ("lzip" ,lzip)
-       ;; To build documentation
-       ("cwltool" ,cwltool)
-       ("graphviz" ,graphviz)
-       ("skribilo" ,skribilo)))
+     (list pkg-config
+           lzip
+           ;; To build documentation
+           cwltool
+           graphviz
+           skribilo))
     (home-page "https://ccwl.systemreboot.net")
     (synopsis "Concise common workflow language")
     (description "The @acronym{ccwl, Concise Common Workflow Language} is a