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-rw-r--r--gnu/packages/bioinformatics.scm39
1 files changed, 39 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index d7e4da6fe8..03eb2dfe30 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -875,6 +875,45 @@ 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")