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

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.

Install the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("pepXMLTab")
AuthorXiaojing Wang
Bioconductor views MassSpectrometry Proteomics
Date of publicationNone
MaintainerXiaojing Wang <xiaojing.wang@vanderbilt.edu>
LicenseArtistic-2.0
Version1.10.0

View on Bioconductor

Files

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

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.