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gnu: Add r-monocle3. 

* gnu/packages/bioconductor.scm (r-monocle3): New variable.
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Ricardo Wurmus 2019-07-30 15:52:48 +02:00
parent 86c46d7120
commit b2dce6b5a2
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63
gnu/packages/bioconductor.scm
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@ -22,6 +22,7 @@
#:use-module ((guix licenses) #:prefix license:)
#:use-module (guix packages)
#:use-module (guix download)
#:use-module (guix git-download)
#:use-module (guix build-system r)
#:use-module (gnu packages)
#:use-module (gnu packages base)
@ -2263,6 +2264,68 @@ 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)))
(define-public r-monocle3
(package
(name "r-monocle3")
(version "0.1.2")
(source
(origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/cole-trapnell-lab/monocle3.git")
(commit version)))
(file-name (git-file-name name version))
(sha256
(base32
"1cjxqfw3qvy269hsf5v80d4kshl932wrl949iayas02saj6f70ls"))))
(build-system r-build-system)
(propagated-inputs
`(("r-biobase" ,r-biobase)
("r-biocgenerics" ,r-biocgenerics)
("r-delayedmatrixstats" ,r-delayedmatrixstats)
("r-dplyr" ,r-dplyr)
("r-ggplot2" ,r-ggplot2)
("r-ggrepel" ,r-ggrepel)
("r-grr" ,r-grr)
("r-htmlwidgets" ,r-htmlwidgets)
("r-igraph" ,r-igraph)
("r-irlba" ,r-irlba)
("r-limma" ,r-limma)
("r-lmtest" ,r-lmtest)
("r-mass" ,r-mass)
("r-matrix" ,r-matrix)
("r-matrix-utils" ,r-matrix-utils)
("r-pbapply" ,r-pbapply)
("r-pbmcapply" ,r-pbmcapply)
("r-pheatmap" ,r-pheatmap)
("r-plotly" ,r-plotly)
("r-pryr" ,r-pryr)
("r-proxy" ,r-proxy)
("r-pscl" ,r-pscl)
("r-purrr" ,r-purrr)
("r-rann" ,r-rann)
("r-rcpp" ,r-rcpp)
("r-rcppparallel" ,r-rcppparallel)
("r-reshape2" ,r-reshape2)
("r-reticulate" ,r-reticulate)
("r-rhpcblasctl" ,r-rhpcblasctl)
("r-rtsne" ,r-rtsne)
("r-shiny" ,r-shiny)
("r-slam" ,r-slam)
("r-spdep" ,r-spdep)
("r-speedglm" ,r-speedglm)
("r-stringr" ,r-stringr)
("r-singlecellexperiment" ,r-singlecellexperiment)
("r-tibble" ,r-tibble)
("r-tidyr" ,r-tidyr)
("r-uwot" ,r-uwot)
("r-viridis" ,r-viridis)))
(home-page "https://github.com/cole-trapnell-lab/monocle3")
(synopsis "Analysis toolkit for single-cell RNA-Seq data")
(description
"Monocle 3 is an analysis toolkit for single-cell RNA-Seq experiments.")
(license license:expat)))
(define-public r-noiseq
(package
(name "r-noiseq")