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| author | Ricardo Wurmus <rekado@elephly.net> | 2017-01-16 12:21:38 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2017-01-17 21:46:50 +0100 |
| commit | 66da3a9f319293f42906117388814b98ddb71b79 (patch) | |
| tree | 4e3ea5fbfe5b43be8e8679a08ab5150764e2b59a | |
| parent | 11879284cbbcc045029f328b7a20a4af4796cb2c (diff) | |
| download | patches-66da3a9f319293f42906117388814b98ddb71b79.tar patches-66da3a9f319293f42906117388814b98ddb71b79.tar.gz | |
gnu: Add r-msnid.
* gnu/packages/bioinformatics.scm (r-msnid): New variable.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 39 |
1 files changed, 39 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index abe5c92949..c60bedce43 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -8463,3 +8463,42 @@ structure (pcaRes) to provide a common interface to the PCA results.") "This package provides basic plotting, data manipulation and processing of MS-based proteomics data.") (license license:artistic2.0))) + +(define-public r-msnid + (package + (name "r-msnid") + (version "1.8.0") + (source + (origin + (method url-fetch) + (uri (bioconductor-uri "MSnID" version)) + (sha256 + (base32 + "0fkk3za39cxi0jyxmagmycjdslr2xf6vg3ylz14jyffqi0blw9d5")))) + (properties `((upstream-name . "MSnID"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biobase" ,r-biobase) + ("r-data-table" ,r-data-table) + ("r-doparallel" ,r-doparallel) + ("r-dplyr" ,r-dplyr) + ("r-foreach" ,r-foreach) + ("r-iterators" ,r-iterators) + ("r-msnbase" ,r-msnbase) + ("r-mzid" ,r-mzid) + ("r-mzr" ,r-mzr) + ("r-protgenerics" ,r-protgenerics) + ("r-r-cache" ,r-r-cache) + ("r-rcpp" ,r-rcpp) + ("r-reshape2" ,r-reshape2))) + (home-page "http://bioconductor.org/packages/MSnID") + (synopsis "Utilities for LC-MSn proteomics identifications") + (description + "This package extracts MS/MS ID data from mzIdentML (leveraging the mzID +package) or text files. After collating the search results from multiple +datasets it assesses their identification quality and optimize filtering +criteria to achieve the maximum number of identifications while not exceeding +a specified false discovery rate. It also contains a number of utilities to +explore the MS/MS results and assess missed and irregular enzymatic cleavages, +mass measurement accuracy, etc.") + (license license:artistic2.0))) |