To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("pepXMLTab")

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

pepXMLTab

   

This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see pepXMLTab.

Parsing pepXML files and filter based on peptide FDR.

Bioconductor version: 3.1

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:

## try http:// if https:// URLs are not supported
source("https://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 1.2.0
In Bioconductor since BioC 3.0 (R-3.1) (1.5 years)
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_1.2.0.tar.gz
Windows Binary pepXMLTab_1.2.0.zip
Mac OS X 10.6 (Snow Leopard) pepXMLTab_1.2.0.tgz
Mac OS X 10.9 (Mavericks) pepXMLTab_1.2.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/pepXMLTab/tree/release-3.1
Package Short Url http://bioconductor.org/packages/pepXMLTab/
Package Downloads Report Download Stats

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