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authorzimoun <zimon.toutoune@gmail.com>2021-05-21 22:26:14 +0200
committerRicardo Wurmus <rekado@elephly.net>2021-05-31 15:39:00 +0200
commitbf8f50295696a95a0ae3dca14188709b4330efac (patch)
treed1498009a06148504f5b93b3222266f2ac637b7b /gnu
parent7360dea62449d5c4f5ce897ee8f642090326ebc9 (diff)
downloadguix-patches-bf8f50295696a95a0ae3dca14188709b4330efac.tar
guix-patches-bf8f50295696a95a0ae3dca14188709b4330efac.tar.gz
gnu: r-mutationalpatterns: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-mutationalpatterns): Move from here... * gnu/packages/bioconductor.scm (r-mutationalpatterns): ...to here.
Diffstat (limited to 'gnu')
-rw-r--r--gnu/packages/bioconductor.scm45
-rw-r--r--gnu/packages/bioinformatics.scm45
2 files changed, 45 insertions, 45 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm
index ca9e15d53e..f66ba6ce5f 100644
--- a/gnu/packages/bioconductor.scm
+++ b/gnu/packages/bioconductor.scm
@@ -3218,6 +3218,51 @@ different technologies, including microarrays, RNA-seq, and quantitative PCR.")
throughput genetic sequencing data sets using regression methods.")
(license license:artistic2.0)))
+(define-public r-mutationalpatterns
+ (package
+ (name "r-mutationalpatterns")
+ (version "3.0.1")
+ (source
+ (origin
+ (method url-fetch)
+ (uri (bioconductor-uri "MutationalPatterns" version))
+ (sha256
+ (base32
+ "1988kjjgq8af0hj7chhpxi88717wwmzs9qgrwapjh0hm2hjwhn35"))))
+ (build-system r-build-system)
+ (native-inputs
+ `(("r-knitr" ,r-knitr)))
+ (propagated-inputs
+ `(("r-biocgenerics" ,r-biocgenerics)
+ ("r-biostrings" ,r-biostrings)
+ ("r-bsgenome" ,r-bsgenome)
+ ;; These two packages are suggested packages
+ ("r-bsgenome-hsapiens-1000g" ,r-bsgenome-hsapiens-1000genomes-hs37d5)
+ ("r-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19)
+ ("r-cowplot" ,r-cowplot)
+ ("r-dplyr" ,r-dplyr)
+ ("r-genomeinfodb" ,r-genomeinfodb)
+ ("r-genomicranges" ,r-genomicranges)
+ ("r-ggalluvial" ,r-ggalluvial)
+ ("r-ggdendro" ,r-ggdendro)
+ ("r-ggplot2" ,r-ggplot2)
+ ("r-iranges" ,r-iranges)
+ ("r-magrittr" ,r-magrittr)
+ ("r-nmf" ,r-nmf)
+ ("r-pracma" ,r-pracma)
+ ("r-purrr" ,r-purrr)
+ ("r-s4vectors" ,r-s4vectors)
+ ("r-stringr" ,r-stringr)
+ ("r-tibble" ,r-tibble)
+ ("r-tidyr" ,r-tidyr)
+ ("r-variantannotation" ,r-variantannotation)))
+ (home-page "https://bioconductor.org/packages/MutationalPatterns/")
+ (synopsis "Extract and visualize mutational patterns in genomic data")
+ (description "This package provides an extensive toolset for the
+characterization and visualization of a wide range of mutational patterns
+in SNV base substitution data.")
+ (license license:expat)))
+
(define-public r-msnbase
(package
(name "r-msnbase")
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index e9eebd35b5..2fc46c7978 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -8097,51 +8097,6 @@ secondary structure and comparative analysis in R.")
@dfn{RNA-centric annotation system} (RCAS).")
(license license:agpl3+)))
-(define-public r-mutationalpatterns
- (package
- (name "r-mutationalpatterns")
- (version "3.0.1")
- (source
- (origin
- (method url-fetch)
- (uri (bioconductor-uri "MutationalPatterns" version))
- (sha256
- (base32
- "1988kjjgq8af0hj7chhpxi88717wwmzs9qgrwapjh0hm2hjwhn35"))))
- (build-system r-build-system)
- (native-inputs
- `(("r-knitr" ,r-knitr)))
- (propagated-inputs
- `(("r-biocgenerics" ,r-biocgenerics)
- ("r-biostrings" ,r-biostrings)
- ("r-bsgenome" ,r-bsgenome)
- ;; These two packages are suggested packages
- ("r-bsgenome-hsapiens-1000g" ,r-bsgenome-hsapiens-1000genomes-hs37d5)
- ("r-bsgenome-hsapiens-ucsc-hg19" ,r-bsgenome-hsapiens-ucsc-hg19)
- ("r-cowplot" ,r-cowplot)
- ("r-dplyr" ,r-dplyr)
- ("r-genomeinfodb" ,r-genomeinfodb)
- ("r-genomicranges" ,r-genomicranges)
- ("r-ggalluvial" ,r-ggalluvial)
- ("r-ggdendro" ,r-ggdendro)
- ("r-ggplot2" ,r-ggplot2)
- ("r-iranges" ,r-iranges)
- ("r-magrittr" ,r-magrittr)
- ("r-nmf" ,r-nmf)
- ("r-pracma" ,r-pracma)
- ("r-purrr" ,r-purrr)
- ("r-s4vectors" ,r-s4vectors)
- ("r-stringr" ,r-stringr)
- ("r-tibble" ,r-tibble)
- ("r-tidyr" ,r-tidyr)
- ("r-variantannotation" ,r-variantannotation)))
- (home-page "https://bioconductor.org/packages/MutationalPatterns/")
- (synopsis "Extract and visualize mutational patterns in genomic data")
- (description "This package provides an extensive toolset for the
-characterization and visualization of a wide range of mutational patterns
-in SNV base substitution data.")
- (license license:expat)))
-
(define-public r-chipkernels
(let ((commit "c9cfcacb626b1221094fb3490ea7bac0fd625372")
(revision "1"))