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gnu: Add r-monocle. 

* gnu/packages/bioconductor.scm (r-monocle): New variable.
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Ricardo Wurmus 2019-03-13 12:59:55 +01:00
parent 925fcdbb79
commit 2d7627cfff
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gnu/packages/bioconductor.scm
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@ -1965,3 +1965,58 @@ interactive exploration of results.")
"This package provides methods and models for handling zero-inflated
single cell assay data.")
(license license:gpl2+)))
(define-public r-monocle
(package
(name "r-monocle")
(version "2.10.1")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "monocle" version))
(sha256
(base32
"0shwkgqs93j2l5h36yyvb1lf724107cfjrmzp5fxfj1lqc0y61lf"))))
(build-system r-build-system)
(propagated-inputs
`(("r-biobase" ,r-biobase)
("r-biocgenerics" ,r-biocgenerics)
("r-biocviews" ,r-biocviews)
("r-cluster" ,r-cluster)
("r-combinat" ,r-combinat)
("r-ddrtree" ,r-ddrtree)
("r-densityclust" ,r-densityclust)
("r-dplyr" ,r-dplyr)
("r-fastica" ,r-fastica)
("r-ggplot2" ,r-ggplot2)
("r-hsmmsinglecell" ,r-hsmmsinglecell)
("r-igraph" ,r-igraph)
("r-irlba" ,r-irlba)
("r-limma" ,r-limma)
("r-mass" ,r-mass)
("r-matrix" ,r-matrix)
("r-matrixstats" ,r-matrixstats)
("r-pheatmap" ,r-pheatmap)
("r-plyr" ,r-plyr)
("r-proxy" ,r-proxy)
("r-qlcmatrix" ,r-qlcmatrix)
("r-rann" ,r-rann)
("r-rcpp" ,r-rcpp)
("r-reshape2" ,r-reshape2)
("r-rtsne" ,r-rtsne)
("r-slam" ,r-slam)
("r-stringr" ,r-stringr)
("r-tibble" ,r-tibble)
("r-vgam" ,r-vgam)
("r-viridis" ,r-viridis)))
(home-page "https://bioconductor.org/packages/monocle")
(synopsis "Clustering, differential expression, and trajectory analysis for single-cell RNA-Seq")
(description
"Monocle performs differential expression and time-series analysis for
single-cell expression experiments. It orders individual cells according to
progress through a biological process, without knowing ahead of time which
genes define progress through that process. Monocle also performs
differential expression analysis, clustering, visualization, and other useful
tasks on single cell expression data. It is designed to work with RNA-Seq and
qPCR data, but could be used with other types as well.")
(license license:artistic2.0)))