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authorRicardo Wurmus <rekado@elephly.net>2021-09-06 14:48:03 +0200
committerRicardo Wurmus <rekado@elephly.net>2021-09-06 14:48:24 +0200
commit816d52ba93d262548f5e1139ff6051887f13dd0d (patch)
treeda3642430e2d7085109b218946ce2831b3e5a417 /gnu/packages/bioconductor.scm
parentc82b723bf8f62718f3448869170cf963249e88c5 (diff)
gnu: Add r-megadepth.
* gnu/packages/bioconductor.scm (r-megadepth): New variable.
Diffstat (limited to 'gnu/packages/bioconductor.scm')
-rw-r--r--gnu/packages/bioconductor.scm33
1 files changed, 33 insertions, 0 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index 36ab137519..ea8a885c5f 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -13700,6 +13700,39 @@ visualization of transcript structures, and matching of assembled transcripts
to annotation.")
(license license:artistic2.0)))
+(define-public r-megadepth
+ (package
+ (name "r-megadepth")
+ (version "1.2.3")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "megadepth" version))
+ (sha256
+ (base32
+ "0grgj7bzyqnxby0sx5ic1h9bzmx19xwl0a5b3v6wbnwqcla2i3kg"))))
+ (properties `((upstream-name . "megadepth")))
+ (build-system r-build-system)
+ (inputs `(("megadepth" ,megadepth)))
+ (propagated-inputs
+ `(("r-cmdfun" ,r-cmdfun)
+ ("r-dplyr" ,r-dplyr)
+ ("r-fs" ,r-fs)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-magrittr" ,r-magrittr)
+ ("r-readr" ,r-readr)
+ ("r-xfun" ,r-xfun)))
+ (native-inputs
+ `(("r-knitr" ,r-knitr)))
+ (home-page "https://github.com/LieberInstitute/megadepth")
+ (synopsis "BigWig and BAM related utilities")
+ (description
+ "This package provides an R interface to Megadepth. It is particularly
+useful for computing the coverage of a set of genomic regions across bigWig or
+BAM files. With this package, you can build base-pair coverage matrices for
+regions or annotations of your choice from BigWig files.")
+ (license license:artistic2.0)))
+
(define-public r-tximeta
(package
(name "r-tximeta")