@@ -2031,6 +2031,58 @@ (define-public r-pacman
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")