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authorRicardo Wurmus <rekado@elephly.net>2021-09-07 14:39:45 +0200
committerRicardo Wurmus <rekado@elephly.net>2021-09-07 14:47:57 +0200
commit5cfe5ddeced29e032f3f822925218525d89af86a (patch)
treeeb2bb794a17352244efa4a033d694cf7d6cf370c /gnu/packages/bioconductor.scm
parentf051f68ca2ee5066db266a0df6d8175573a48131 (diff)
gnu: Add r-biscuiteer.
* gnu/packages/bioconductor.scm (r-biscuiteer): New variable.
Diffstat (limited to 'gnu/packages/bioconductor.scm')
-rw-r--r--gnu/packages/bioconductor.scm51
1 files changed, 51 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 151d74d25c..25202410e5 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -14602,6 +14602,57 @@ with a nested autoregressive correlated error structure for the effect of
interest on transformed methylation proportions.")
(license license:expat)))
+(define-public r-biscuiteer
+ (package
+ (name "r-biscuiteer")
+ (version "1.6.0")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "biscuiteer" version))
+ (sha256
+ (base32
+ "0f4kk4v2c5diq0fbvyvgwjd1kjk9izr6n9wfrlrr7wbx4pz3c3h6"))))
+ (properties `((upstream-name . "biscuiteer")))
+ (build-system r-build-system)
+ (propagated-inputs
+ `(("r-biobase" ,r-biobase)
+ ("r-biocgenerics" ,r-biocgenerics)
+ ("r-biocparallel" ,r-biocparallel)
+ ("r-biscuiteerdata" ,r-biscuiteerdata)
+ ("r-bsseq" ,r-bsseq)
+ ("r-data-table" ,r-data-table)
+ ("r-delayedmatrixstats" ,r-delayedmatrixstats)
+ ("r-dmrseq" ,r-dmrseq)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-gtools" ,r-gtools)
+ ("r-hdf5array" ,r-hdf5array)
+ ("r-homo-sapiens" ,r-homo-sapiens)
+ ("r-impute" ,r-impute)
+ ("r-matrix" ,r-matrix)
+ ("r-matrixstats" ,r-matrixstats)
+ ("r-mus-musculus" ,r-mus-musculus)
+ ("r-qdnaseq" ,r-qdnaseq)
+ ("r-qualv" ,r-qualv)
+ ("r-r-utils" ,r-r-utils)
+ ("r-readr" ,r-readr)
+ ("r-rsamtools" ,r-rsamtools)
+ ("r-rtracklayer" ,r-rtracklayer)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-summarizedexperiment" ,r-summarizedexperiment)
+ ("r-variantannotation" ,r-variantannotation)))
+ (native-inputs
+ `(("r-knitr" ,r-knitr)))
+ (home-page "https://github.com/trichelab/biscuiteer")
+ (synopsis "Convenience functions for the Biscuit package")
+ (description
+ "This package provides a test harness for bsseq loading of Biscuit
+output, summarization of WGBS data over defined regions and in mappable
+samples, with or without imputation, dropping of mostly-NA rows, age
+estimates, etc.")
+ (license license:gpl3)))
+
(define-public r-tximeta
(package
(name "r-tximeta")