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Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 29 |
1 files changed, 29 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 5b3eec86db..f0b589b6c0 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -11079,3 +11079,32 @@ contains a few programs for model fitting and phylogenetic tree reconstruction using nucleotide or amino-acid sequence data.") ;; GPLv3 only (license license:gpl3))) + +(define-public kallisto + (package + (name "kallisto") + (version "0.43.1") + (source (origin + (method url-fetch) + (uri (string-append "https://github.com/pachterlab/" + "kallisto/archive/v" version ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) + (sha256 + (base32 + "03j3iqhvq7ya3c91gidly3k3jvgm97vjq4scihrlxh315j696r11")))) + (build-system cmake-build-system) + (arguments `(#:tests? #f)) ; no "check" target + (inputs + `(("hdf5" ,hdf5) + ("zlib" ,zlib))) + (home-page "http://pachterlab.github.io/kallisto/") + (synopsis "Near-optimal RNA-Seq quantification") + (description + "Kallisto is a program for quantifying abundances of transcripts from +RNA-Seq data, or more generally of target sequences using high-throughput +sequencing reads. It is based on the novel idea of pseudoalignment for +rapidly determining the compatibility of reads with targets, without the need +for alignment. Pseudoalignment of reads preserves the key information needed +for quantification, and kallisto is therefore not only fast, but also as +accurate as existing quantification tools.") + (license license:bsd-2))) |