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| author | Mădălin Ionel Patrașcu <madalinionel.patrascu@mdc-berlin.de> | 2023-02-27 11:28:45 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2023-03-01 13:46:01 +0100 |
| commit | 020e5ac362e3dbb578da40adeaa929a2f5fd3929 (patch) | |
| tree | 6e9201f00eaf68eafbdbcbc5c01905943f02ae82 | |
| parent | c7a25ee3de555f78b4726d9dc0693104ade32c92 (diff) | |
| download | guix-patches-020e5ac362e3dbb578da40adeaa929a2f5fd3929.tar guix-patches-020e5ac362e3dbb578da40adeaa929a2f5fd3929.tar.gz | |
gnu: Add r-pagoda2.
* gnu/packages/cran.scm (r-pagoda2): New variable.
| -rw-r--r-- | gnu/packages/cran.scm | 53 |
1 files changed, 53 insertions, 0 deletions
diff --git a/gnu/packages/cran.scm b/gnu/packages/cran.scm index d4acc8cfdc..5e69b7e3f6 100644 --- a/gnu/packages/cran.scm +++ b/gnu/packages/cran.scm @@ -2031,6 +2031,59 @@ consistent fashion. It seeks to combine functionality from lower level functions which can speed up workflow.") (license license:gpl2))) +(define-public r-pagoda2 + (package + (name "r-pagoda2") + (version "1.0.10") + (source + (origin + (method url-fetch) + (uri (cran-uri "pagoda2" version)) + (sha256 + (base32 "18ip8j5l5c3hqw1xsf5wnyas55i2mhk09phy68kjkjdgcymmpg7c")))) + (properties `((upstream-name . "pagoda2"))) + (build-system r-build-system) + (propagated-inputs + (list r-dendsort + r-drat + r-fastcluster + r-igraph + r-irlba + r-magrittr + r-mass + r-matrix + r-mgcv + r-n2r + r-plyr + r-r-utils + r-r6 + r-rcpp + r-rcpparmadillo + r-rcppeigen + r-rcppprogress + r-rjson + r-rlang + r-rmtstat + r-rook + r-rtsne + r-sccore + r-urltools)) + (home-page "https://github.com/kharchenkolab/pagoda2") + (synopsis "Single cell analysis and differential expression") + (description + "The package offers functions for analyzing and interactively exploring +large-scale single-cell RNA-seq datasets. Pagoda2 primarily performs +normalization and differential gene expression analysis, with an interactive +application for exploring single-cell RNA-seq datasets. It performs basic +tasks such as cell size normalization, gene variance normalization, and can be +used to identify subpopulations and run differential expression within +individual samples. pagoda2 was written to rapidly process modern large-scale +scRNAseq datasets of approximately 1e6 cells. The companion web application +allows users to explore which gene expression patterns form the different +subpopulations within your data. The package also serves as the primary +method for preprocessing data for conos.") + (license license:gpl3))) + (define-public r-pals (package (name "r-pals") |