mzID

DOI: 10.18129/B9.bioc.mzID    

An mzIdentML parser for R

Bioconductor version: Release (3.6)

A parser for mzIdentML files implemented using the XML package. The parser tries to be general and able to handle all types of mzIdentML files with the drawback of having less 'pretty' output than a vendor specific parser. Please contact the maintainer with any problems and supply an mzIdentML file so the problems can be fixed quickly.

Author: Thomas Lin Pedersen, Vladislav A Petyuk with contributions from Laurent Gatto and Sebastian Gibb.

Maintainer: Thomas Lin Pedersen <thomasp85 at gmail.com>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("mzID")

 

PDF	R Script	Using mzID
PDF		Reference Manual
Text		NEWS

Details

biocViews	DataImport, MassSpectrometry, Proteomics, Software
Version	1.16.0
In Bioconductor since	BioC 2.13 (R-3.0) (4.5 years)
License	GPL (>= 2)
Depends	methods
Imports	XML, plyr, parallel, doParallel, foreach, iterators, ProtGenerics
LinkingTo
Suggests	knitr, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me	MSGFgui, MSGFplus, MSnbase, MSnID, Pbase
Suggests Me	mzR, RforProteomics
Build Report

Package Archives

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

Source Package	mzID_1.16.0.tar.gz
Windows Binary	mzID_1.16.0.zip
Mac OS X 10.11 (El Capitan)	mzID_1.16.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/mzID
Package Short Url	http://bioconductor.org/packages/mzID/
Package Downloads Report	Download Stats