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add qtlreaper

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pjotrp committed Jan 22, 2016
1 parent b88ec82 commit bd27d282ef25ae04daa3ef7ef8413b5fedce527d
Showing with 35 additions and 0 deletions.
  1. +35 −0 gn/packages/bioinformatics.scm
@@ -120,6 +120,41 @@
"Functions necessary to perform Weighted Correlation Network Analysis on high-dimensional data. Includes functions for rudimentary data cleaning, construction of correlation networks, module identification, summarization, and relating of variables and modules to sample traits. Also includes a number of utility functions for data manipulation and visualization.")
(license license:gpl2+)))
(define-public qtlreaper
(package
(name "qtlreaper")
(version "1.1.1")
(source
(origin
(method url-fetch)
(uri (string-append
"mirror://sourceforge/qtlreaper/qtlreaper-" version ".tar.gz"
;; "http://downloads.sourceforge.net/project/qtlreaper/qtlreaper/1.1.1/qtlreaper-1.1.1.tar.gz?r=http%3A%2F%2Fsourceforge.net%2Fprojects%2Fqtlreaper%2Ffiles%2Flatest%2Fdownload&ts=1358975786&use_mirror=iweb"))
))
(file-name (string-append name "-" version ".tar.gz"))
(sha256
(base32
"0rbf030940nbbbkggdq2dxiy3c0jv8l4y3vvyfxhqimgj0qv3l1x"))))
(build-system python-build-system)
;; (native-inputs
;; `(("python-setuptools" ,python-setuptools)))
(arguments
`(#:python ,python-2
#:tests? #f)) ; no 'setup.py test'
(home-page "http://qtlreaper.sourceforge.net/")
(synopsis "Tool for scanning expression data for QTLs")
(description
"It is essentially the batch-oriented version of WebQTL. It
requires, as input, expression data from members of a set of
recombinant inbred lines and genotype information for the same
lines. It searches for an association between each expression trait
and all genotypes and evaluates that association by a permutation
test. For the permutation test, it performs only as many permutations
as are necessary to define the empirical P-value to a reasonable
precision. It also performs bootstrap resampling to estimate the
confidence region for the location of a putative QTL.")
(license license:gpl2)))
(define-public genenetwork2
(let ((commit "9e9475053"))

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