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gnu: r-gviz: Move to (gnu packages bioconductor).

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* gnu/packages/bioinformatics.scm (r-gviz): Move from here...
* gnu/packages/bioconductor.scm (r-gviz): ...to here.
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zimoun 2020-12-23 19:06:28 +01:00 committed by Ricardo Wurmus
parent 69a5e066c1
commit 2a4322f7c3
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GPG key ID: 197A5888235FACAC
2 changed files with 49 additions and 49 deletions
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49
gnu/packages/bioconductor.scm
View file

@ -9241,6 +9241,55 @@ (define-public r-catalyst
standards, ii) single-cell deconvolution, and iii) bead-based compensation.")
(license license:gpl2+)))
(define-public r-gviz
(package
(name "r-gviz")
(version "1.34.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "Gviz" version))
(sha256
(base32
"0v7bz46b91dnrr55ah42ljj1i2xs3090s4w0lw8098pag00p4vh2"))))
(properties `((upstream-name . "Gviz")))
(build-system r-build-system)
(propagated-inputs
`(("r-annotationdbi" ,r-annotationdbi)
("r-biobase" ,r-biobase)
("r-biocgenerics" ,r-biocgenerics)
("r-biomart" ,r-biomart)
("r-biostrings" ,r-biostrings)
("r-biovizbase" ,r-biovizbase)
("r-bsgenome" ,r-bsgenome)
("r-digest" ,r-digest)
("r-ensembldb" ,r-ensembldb)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicalignments" ,r-genomicalignments)
("r-genomicfeatures" ,r-genomicfeatures)
("r-genomicranges" ,r-genomicranges)
("r-iranges" ,r-iranges)
("r-lattice" ,r-lattice)
("r-latticeextra" ,r-latticeextra)
("r-matrixstats" ,r-matrixstats)
("r-rcolorbrewer" ,r-rcolorbrewer)
("r-rsamtools" ,r-rsamtools)
("r-rtracklayer" ,r-rtracklayer)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/Gviz")
(synopsis "Plotting data and annotation information along genomic coordinates")
(description
"Genomic data analyses requires integrated visualization of known genomic
information and new experimental data. Gviz uses the biomaRt and the
rtracklayer packages to perform live annotation queries to Ensembl and UCSC
and translates this to e.g. gene/transcript structures in viewports of the
grid graphics package. This results in genomic information plotted together
with your data.")
(license license:artistic2.0)))
(define-public r-gwascat
(package
(name "r-gwascat")

49
gnu/packages/bioinformatics.scm
View file

@ -10785,55 +10785,6 @@ (define-public r-gqtlstats
family of feature/genome hypotheses.")
(license license:artistic2.0)))
(define-public r-gviz
(package
(name "r-gviz")
(version "1.34.0")
(source
(origin
(method url-fetch)
(uri (bioconductor-uri "Gviz" version))
(sha256
(base32
"0v7bz46b91dnrr55ah42ljj1i2xs3090s4w0lw8098pag00p4vh2"))))
(properties `((upstream-name . "Gviz")))
(build-system r-build-system)
(propagated-inputs
`(("r-annotationdbi" ,r-annotationdbi)
("r-biobase" ,r-biobase)
("r-biocgenerics" ,r-biocgenerics)
("r-biomart" ,r-biomart)
("r-biostrings" ,r-biostrings)
("r-biovizbase" ,r-biovizbase)
("r-bsgenome" ,r-bsgenome)
("r-digest" ,r-digest)
("r-ensembldb" ,r-ensembldb)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicalignments" ,r-genomicalignments)
("r-genomicfeatures" ,r-genomicfeatures)
("r-genomicranges" ,r-genomicranges)
("r-iranges" ,r-iranges)
("r-lattice" ,r-lattice)
("r-latticeextra" ,r-latticeextra)
("r-matrixstats" ,r-matrixstats)
("r-rcolorbrewer" ,r-rcolorbrewer)
("r-rsamtools" ,r-rsamtools)
("r-rtracklayer" ,r-rtracklayer)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/Gviz")
(synopsis "Plotting data and annotation information along genomic coordinates")
(description
"Genomic data analyses requires integrated visualization of known genomic
information and new experimental data. Gviz uses the biomaRt and the
rtracklayer packages to perform live annotation queries to Ensembl and UCSC
and translates this to e.g. gene/transcript structures in viewports of the
grid graphics package. This results in genomic information plotted together
with your data.")
(license license:artistic2.0)))
(define-public r-dropbead
(let ((commit "d746c6f3b32110428ea56d6a0001ce52a251c247")
(revision "2"))