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gnu: r-msnid: Move to (gnu packages bioconductor).
* gnu/packages/bioinformatics.scm (r-msnid): Move from here... * gnu/packages/bioconductor.scm (r-msnid): ...to here.
This commit is contained in:
zimoun
Ricardo Wurmus
parent
537d48d869
commit
8c7c78bfce
2 changed files with 52 additions and 52 deletions
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@ -2517,6 +2517,58 @@ (define-public r-limma
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different technologies, including microarrays, RNA-seq, and quantitative PCR.")
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different technologies, including microarrays, RNA-seq, and quantitative PCR.")
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(license license:gpl2+)))
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(license license:gpl2+)))
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(define-public r-msnid
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(package
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(name "r-msnid")
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(version "1.24.0")
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(source
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(origin
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(method url-fetch)
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(uri (bioconductor-uri "MSnID" version))
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(sha256
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(base32
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"05bncy7lw2a3h8xgnavjiz56pc6mk8q7l6qdd81197nawxs3j02d"))))
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(properties `((upstream-name . "MSnID")))
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(build-system r-build-system)
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(propagated-inputs
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`(("r-annotationdbi" ,r-annotationdbi)
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("r-annotationhub" ,r-annotationhub)
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("r-biobase" ,r-biobase)
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("r-biocgenerics" ,r-biocgenerics)
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("r-biocstyle" ,r-biocstyle)
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("r-biostrings" ,r-biostrings)
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("r-data-table" ,r-data-table)
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("r-doparallel" ,r-doparallel)
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("r-dplyr" ,r-dplyr)
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("r-foreach" ,r-foreach)
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("r-ggplot2" ,r-ggplot2)
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("r-iterators" ,r-iterators)
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("r-msnbase" ,r-msnbase)
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("r-msmstests" ,r-msmstests)
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("r-mzid" ,r-mzid)
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("r-mzr" ,r-mzr)
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("r-protgenerics" ,r-protgenerics)
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("r-purrr" ,r-purrr)
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("r-r-cache" ,r-r-cache)
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("r-rcpp" ,r-rcpp)
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("r-reshape2" ,r-reshape2)
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("r-rlang" ,r-rlang)
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("r-runit" ,r-runit)
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("r-stringr" ,r-stringr)
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("r-tibble" ,r-tibble)
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("r-xtable" ,r-xtable)))
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(home-page "https://bioconductor.org/packages/MSnID")
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(synopsis "Utilities for LC-MSn proteomics identifications")
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(description
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"This package extracts @dfn{tandem mass spectrometry} (MS/MS) ID data
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from mzIdentML (leveraging the mzID package) or text files. After collating
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the search results from multiple datasets it assesses their identification
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quality and optimize filtering criteria to achieve the maximum number of
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identifications while not exceeding a specified false discovery rate. It also
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contains a number of utilities to explore the MS/MS results and assess missed
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and irregular enzymatic cleavages, mass measurement accuracy, etc.")
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(license license:artistic2.0)))
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(define-public r-rbgl
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(define-public r-rbgl
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(package
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(package
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(name "r-rbgl")
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(name "r-rbgl")
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@ -9449,58 +9449,6 @@ (define-public r-msnbase
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of mass spectrometry based proteomics data.")
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of mass spectrometry based proteomics data.")
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(license license:artistic2.0)))
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(license license:artistic2.0)))
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(define-public r-msnid
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(package
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(name "r-msnid")
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(version "1.24.0")
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(source
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(origin
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(method url-fetch)
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(uri (bioconductor-uri "MSnID" version))
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(sha256
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(base32
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"05bncy7lw2a3h8xgnavjiz56pc6mk8q7l6qdd81197nawxs3j02d"))))
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(properties `((upstream-name . "MSnID")))
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(build-system r-build-system)
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(propagated-inputs
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`(("r-annotationdbi" ,r-annotationdbi)
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("r-annotationhub" ,r-annotationhub)
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("r-biobase" ,r-biobase)
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("r-biocgenerics" ,r-biocgenerics)
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("r-biocstyle" ,r-biocstyle)
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("r-biostrings" ,r-biostrings)
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("r-data-table" ,r-data-table)
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("r-doparallel" ,r-doparallel)
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("r-dplyr" ,r-dplyr)
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("r-foreach" ,r-foreach)
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("r-ggplot2" ,r-ggplot2)
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("r-iterators" ,r-iterators)
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("r-msnbase" ,r-msnbase)
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("r-msmstests" ,r-msmstests)
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("r-mzid" ,r-mzid)
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("r-mzr" ,r-mzr)
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("r-protgenerics" ,r-protgenerics)
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("r-purrr" ,r-purrr)
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("r-r-cache" ,r-r-cache)
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("r-rcpp" ,r-rcpp)
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("r-reshape2" ,r-reshape2)
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("r-rlang" ,r-rlang)
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("r-runit" ,r-runit)
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("r-stringr" ,r-stringr)
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("r-tibble" ,r-tibble)
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("r-xtable" ,r-xtable)))
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(home-page "https://bioconductor.org/packages/MSnID")
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(synopsis "Utilities for LC-MSn proteomics identifications")
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(description
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"This package extracts @dfn{tandem mass spectrometry} (MS/MS) ID data
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from mzIdentML (leveraging the mzID package) or text files. After collating
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the search results from multiple datasets it assesses their identification
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quality and optimize filtering criteria to achieve the maximum number of
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identifications while not exceeding a specified false discovery rate. It also
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contains a number of utilities to explore the MS/MS results and assess missed
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and irregular enzymatic cleavages, mass measurement accuracy, etc.")
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(license license:artistic2.0)))
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(define-public r-aroma-light
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(define-public r-aroma-light
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(package
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(package
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(name "r-aroma-light")
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(name "r-aroma-light")
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