To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("pepXMLTab")

In most cases, you don't need to download the package archive at all.

pepXMLTab

Parsing pepXML files and filter based on peptide FDR.

Bioconductor version: 3.0

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

Maintainer: Xiaojing Wang <xiaojing.wang at vanderbilt.edu>

Citation (from within R, enter citation("pepXMLTab")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("pepXMLTab")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("pepXMLTab")

PDF	R Script	Introduction to pepXMLTab
PDF		Reference Manual
Text		NEWS

Details

biocViews	MassSpectrometry, Proteomics, Software
Version	1.0.0
In Bioconductor since	BioC 3.0 (R-3.1)
License	Artistic-2.0
Depends	R (>= 3.0.1)
Imports	XML (>= 3.98-1.1)
LinkingTo
Suggests	RUnit, BiocGenerics
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source	pepXMLTab_1.0.0.tar.gz
Windows Binary	pepXMLTab_1.0.0.zip
Mac OS X 10.6 (Snow Leopard)	pepXMLTab_1.0.0.tgz
Mac OS X 10.9 (Mavericks)	pepXMLTab_1.0.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats

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