diff options
Diffstat (limited to 'gnu/packages/bioconductor.scm')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 63 |
1 files changed, 63 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 98a2da21c9..1adf47b08f 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -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") |