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| -rw-r--r-- | gnu/packages/bioconductor.scm | 55 |
1 files changed, 55 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 782b769225..af7259330c 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -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))) |