pepXMLTab: Parsing pepXML files and filter based on peptide FDR.

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Parsing pepXML files based one XML package. The package tries to handle pepXML files generated from different softwares. The output will be a peptide-spectrum-matching tabular file. The package also provide function to filter the PSMs based on FDR.

Author
Xiaojing Wang
Date of publication
None
Maintainer
Xiaojing Wang <xiaojing.wang@vanderbilt.edu>
License
Artistic-2.0
Version
1.8.0

View on Bioconductor

Man pages

pepXML2tab
Generate a data frame objects from a pepXML file.
PSMfilter
Filter the peptide indentification.

Files in this package

pepXMLTab/DESCRIPTION
pepXMLTab/NAMESPACE
pepXMLTab/NEWS
pepXMLTab/R
pepXMLTab/R/PSMfilter.R
pepXMLTab/R/pepXML2tab.R
pepXMLTab/build
pepXMLTab/build/vignette.rds
pepXMLTab/inst
pepXMLTab/inst/doc
pepXMLTab/inst/doc/pepXMLTab.R
pepXMLTab/inst/doc/pepXMLTab.Rnw
pepXMLTab/inst/doc/pepXMLTab.pdf
pepXMLTab/inst/extdata
pepXMLTab/inst/extdata/pepxml
pepXMLTab/inst/extdata/pepxml/Mascot.pepXML
pepXMLTab/inst/extdata/pepxml/Myrimatch.pepXML
pepXMLTab/inst/extdata/pepxml/SEQUEST.pepXML
pepXMLTab/inst/extdata/pepxml/XTandem.pepXML
pepXMLTab/inst/unitTests
pepXMLTab/inst/unitTests/test_PSMfilter.R
pepXMLTab/inst/unitTests/test_pepXML2tab.R
pepXMLTab/inst/unitTests/tmp.pepXML
pepXMLTab/man
pepXMLTab/man/PSMfilter.Rd
pepXMLTab/man/pepXML2tab.Rd
pepXMLTab/tests
pepXMLTab/tests/runTests.R
pepXMLTab/vignettes
pepXMLTab/vignettes/pepXMLTab.Rnw
pepXMLTab/vignettes/pepXMLTab.bib