mzID

DOI: 10.18129/B9.bioc.mzID    

An mzIdentML parser for R

Bioconductor version: Release (3.14)

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: Laurent Gatto [ctb, cre] , Thomas Pedersen [aut] , Vladislav Petyuk [ctb]

Maintainer: Laurent Gatto <laurent.gatto at uclouvain.be>

Installation

To install this package, start R (version "4.1") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("mzID")

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

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, ImmunoOncology, MassSpectrometry, Proteomics, Software
Version	1.32.0
In Bioconductor since	BioC 2.13 (R-3.0) (8.5 years)
License	GPL (>= 2)
Depends	methods
Imports	XML, plyr, parallel, doParallel, foreach, iterators, ProtGenerics
LinkingTo
Suggests	knitr, testthat
SystemRequirements
Enhances
URL
Depends On Me	proteomics
Imports Me	MSGFgui, MSGFplus, MSnbase, MSnID, TargetDecoy
Suggests Me	mzR, RforProteomics
Links To Me
Build Report

Package Archives

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

Source Package	mzID_1.32.0.tar.gz
Windows Binary	mzID_1.32.0.zip
macOS 10.13 (High Sierra)	mzID_1.32.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/mzID
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/mzID
Package Short Url	https://bioconductor.org/packages/mzID/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.14	Source Archive