gnu: Add deeptools.

* gnu/packages/bioinformatics.scm (deeptools): New variable.
This commit is contained in:
Ricardo Wurmus 2015-08-31 17:22:19 +02:00
parent f85ccf88ef
commit 1921b1de07
1 changed files with 39 additions and 0 deletions

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@ -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.") other types of unwanted sequence from high-throughput sequencing reads.")
(license license:expat))) (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 (define-public diamond
(package (package
(name "diamond") (name "diamond")