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gnu: Add r-shaman.

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* gnu/packages/bioinformatics.scm (r-shaman): New variable.
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Ricardo Wurmus 2021-10-21 14:34:35 +00:00
parent 4885f40b80
commit f65917f607
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gnu/packages/bioinformatics.scm
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@ -7734,6 +7734,50 @@ (define-public r-misha
analyze genomic data resulting from various experiments.")
(license license:gpl2)))
(define-public r-shaman
(let ((commit "d6944e8ac7bd1dbd5c6cec646eafc1d19d0ca96f")
(release "2.0")
(revision "2"))
(package
(name "r-shaman")
(version (git-version release revision commit))
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/tanaylab/shaman")
(commit commit)))
(file-name (git-file-name name version))
(sha256
(base32
"03sx138dzpfiq23j49z0m0s4j79855mrg64hpj9c83408wzphxi6"))
(snippet
;; This file will be generated.
'(delete-file "inst/doc/shaman-package.R"))))
(build-system r-build-system)
(propagated-inputs
`(("r-data-table" ,r-data-table)
("r-domc" ,r-domc)
("r-ggplot2" ,r-ggplot2)
("r-gviz" ,r-gviz)
("r-misha" ,r-misha)
("r-plyr" ,r-plyr)
("r-rann" ,r-rann)
("r-rcpp" ,r-rcpp)
("r-reshape2" ,r-reshape2)
;; For vignettes
("r-rmarkdown" ,r-rmarkdown)
("r-knitr" ,r-knitr)))
(home-page "https://github.com/tanaylab/shaman")
(synopsis "Sampling HiC contact matrices for a-parametric normalization")
(description "The Shaman package implements functions for
resampling Hi-C matrices in order to generate expected contact
distributions given constraints on marginal coverage and
contact-distance probability distributions. The package also provides
support for visualizing normalized matrices and statistical analysis
of contact distributions around selected landmarks.")
;; Any version of the GPL
(license license:gpl3+))))
(define-public r-centipede
(package
(name "r-centipede")