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(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")