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Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 39 |
1 files changed, 39 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 189dd959a5..bbd02f3123 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -873,6 +873,45 @@ file formats including SAM/BAM, Wiggle/BigWig, BED, GFF/GTF, VCF.") other types of unwanted sequence from high-throughput sequencing reads.") (license license:expat))) +(define-public deeptools + (package + (name "deeptools") + (version "1.5.11") + (source (origin + (method url-fetch) + (uri (string-append + "https://github.com/fidelram/deepTools/archive/" + version ".tar.gz")) + (file-name (string-append name "-" version ".tar.gz")) + (sha256 + (base32 + "1kaagygcbvjs9sxd9cqmskd02wcfp9imvb735r087w7hwqpvz6fs")))) + (build-system python-build-system) + (arguments + `(#:python ,python-2)) + (propagated-inputs + `(("python-scipy" ,python2-scipy) + ("python-numpy" ,python2-numpy) + ("python-matplotlib" ,python2-matplotlib) + ("python-bx-python" ,python2-bx-python) + ("python-pysam" ,python2-pysam))) + (native-inputs + `(("python-mock" ,python2-mock) ;for tests + ("python-pytz" ,python2-pytz) ;for tests + ("python-setuptools" ,python2-setuptools))) + (home-page "https://github.com/fidelram/deepTools") + (synopsis "Tools for normalizing and visualizing deep-sequencing data") + (description + "DeepTools addresses the challenge of handling the large amounts of data +that are now routinely generated from DNA sequencing centers. To do so, +deepTools contains useful modules to process the mapped reads data to create +coverage files in standard bedGraph and bigWig file formats. By doing so, +deepTools allows the creation of normalized coverage files or the comparison +between two files (for example, treatment and control). Finally, using such +normalized and standardized files, multiple visualizations can be created to +identify enrichments with functional annotations of the genome.") + (license license:gpl3+))) + (define-public diamond (package (name "diamond") |