Welcome to the new bioconductor.org!


Parsing pepXML files and filter based on peptide FDR.

Bioconductor version: Release (3.18)

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")):


To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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

Introduction to pepXMLTab PDF R Script
Reference Manual PDF


biocViews ImmunoOncology, MassSpectrometry, Proteomics, Software
Version 1.36.0
In Bioconductor since BioC 3.0 (R-3.1) (9.5 years)
License Artistic-2.0
Depends R (>= 3.0.1)
Imports XML (>= 3.98-1.1)
System Requirements
See More
Suggests RUnit, BiocGenerics
Linking To
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package pepXMLTab_1.36.0.tar.gz
Windows Binary pepXMLTab_1.36.0.zip
macOS Binary (x86_64) pepXMLTab_1.36.0.tgz
macOS Binary (arm64) pepXMLTab_1.36.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/pepXMLTab
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/pepXMLTab
Bioc Package Browser https://code.bioconductor.org/browse/pepXMLTab/
Package Short Url https://bioconductor.org/packages/pepXMLTab/
Package Downloads Report Download Stats