gnu: Add bwa-pssm.

* gnu/packages/bioinformatics.scm (bwa-pssm): New variable.
This commit is contained in:
Ricardo Wurmus 2016-02-29 15:13:52 +01:00
parent b4464d384c
commit d29150b55d

View file

@ -42,6 +42,7 @@ (define-module (gnu packages bioinformatics)
#:use-module (gnu packages cpio)
#:use-module (gnu packages curl)
#:use-module (gnu packages doxygen)
#:use-module (gnu packages datastructures)
#:use-module (gnu packages file)
#:use-module (gnu packages gawk)
#:use-module (gnu packages gcc)
@ -774,6 +775,35 @@ (define-public bwa
70-100bp Illumina reads.")
(license license:gpl3+)))
(define-public bwa-pssm
(package (inherit bwa)
(name "bwa-pssm")
(version "0.5.11")
(source (origin
(method url-fetch)
(uri (string-append "https://github.com/pkerpedjiev/bwa-pssm/"
"archive/" version ".tar.gz"))
(file-name (string-append name "-" version ".tar.gz"))
(sha256
(base32
"02p7mpbs4mlxmn84g2x4ghak638vbj4lqix2ipx5g84pz9bhdavg"))))
(build-system gnu-build-system)
(inputs
`(("gdsl" ,gdsl)
("zlib" ,zlib)
("perl" ,perl)))
(home-page "http://bwa-pssm.binf.ku.dk/")
(synopsis "Burrows-Wheeler transform-based probabilistic short read mapper")
(description
"BWA-PSSM is a probabilistic short genomic sequence read aligner based on
the use of @dfn{position specific scoring matrices} (PSSM). Like many of the
existing aligners it is fast and sensitive. Unlike most other aligners,
however, it is also adaptible in the sense that one can direct the alignment
based on known biases within the data set. It is coded as a modification of
the original BWA alignment program and shares the genome index structure as
well as many of the command line options.")
(license license:gpl3+)))
(define-public python2-bx-python
(package
(name "python2-bx-python")