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gnu: Add kallisto.

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* gnu/packages/bioinformatics.scm (kallisto): New variable.
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Ricardo Wurmus 2017-12-01 10:52:55 +01:00
parent 803a9d5c37
commit d112e5a8c2
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gnu/packages/bioinformatics.scm
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@ -11079,3 +11079,32 @@ (define-public paml
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)))