gnu: Add ribodiff.
* gnu/packages/bioinformatics.scm (ribodiff): New variable.
This commit is contained in:
parent
e84efc50d7
commit
769fc6bb18
|
@ -468,6 +468,47 @@ frames} (ORFs) using ribosome profiling (ribo-seq) data. This package
|
||||||
provides the Ribotaper pipeline.")
|
provides the Ribotaper pipeline.")
|
||||||
(license license:gpl3+)))
|
(license license:gpl3+)))
|
||||||
|
|
||||||
|
(define-public ribodiff
|
||||||
|
(package
|
||||||
|
(name "ribodiff")
|
||||||
|
(version "0.2.2")
|
||||||
|
(source
|
||||||
|
(origin
|
||||||
|
(method url-fetch)
|
||||||
|
(uri (string-append "https://github.com/ratschlab/RiboDiff/"
|
||||||
|
"archive/v" version ".tar.gz"))
|
||||||
|
(file-name (string-append name "-" version ".tar.gz"))
|
||||||
|
(sha256
|
||||||
|
(base32
|
||||||
|
"0wpbwmfv05wdjxv7ikm664f7s7p7cqr8jnw99zrda0q67rl50aaj"))))
|
||||||
|
(build-system python-build-system)
|
||||||
|
(arguments
|
||||||
|
`(#:python ,python-2
|
||||||
|
#:phases
|
||||||
|
(modify-phases %standard-phases
|
||||||
|
;; Generate an installable executable script wrapper.
|
||||||
|
(add-after 'unpack 'patch-setup.py
|
||||||
|
(lambda _
|
||||||
|
(substitute* "setup.py"
|
||||||
|
(("^(.*)packages=.*" line prefix)
|
||||||
|
(string-append line "\n"
|
||||||
|
prefix "scripts=['scripts/TE.py'],\n")))
|
||||||
|
#t)))))
|
||||||
|
(inputs
|
||||||
|
`(("python-numpy" ,python2-numpy)
|
||||||
|
("python-matplotlib" ,python2-matplotlib)
|
||||||
|
("python-scipy" ,python2-scipy)
|
||||||
|
("python-statsmodels" ,python2-statsmodels)))
|
||||||
|
(home-page "http://public.bmi.inf.ethz.ch/user/zhongy/RiboDiff/")
|
||||||
|
(synopsis "Detect translation efficiency changes from ribosome footprints")
|
||||||
|
(description "RiboDiff is a statistical tool that detects the protein
|
||||||
|
translational efficiency change from Ribo-Seq (ribosome footprinting) and
|
||||||
|
RNA-Seq data. It uses a generalized linear model to detect genes showing
|
||||||
|
difference in translational profile taking mRNA abundance into account. It
|
||||||
|
facilitates us to decipher the translational regulation that behave
|
||||||
|
independently with transcriptional regulation.")
|
||||||
|
(license license:gpl3+)))
|
||||||
|
|
||||||
(define-public bioawk
|
(define-public bioawk
|
||||||
(package
|
(package
|
||||||
(name "bioawk")
|
(name "bioawk")
|
||||||
|
|
Loading…
Reference in New Issue