mzID

This is the development version of mzID; for the stable release version, see mzID.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13

An mzIdentML parser for R

Bioconductor version: Development (3.24)

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] ORCID: 0000-0002-1520-2268 , Thomas Pedersen [aut] ORCID: 0000-0002-6977-7147 , Vladislav Petyuk [ctb]

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

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

Thomas Pedersen. mzID: An mzIdentML parser for R. doi:10.18129/B9.bioc.mzID, R package version 1.51.0, https://bioconductor.org/packages/mzID.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

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")

Using mzID	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DataImport, ImmunoOncology, MassSpectrometry, Proteomics, Software
Version	1.51.0
In Bioconductor since	BioC 2.13 (R-3.0) (13 years)
License	GPL (>= 2)
Depends	methods
Imports	XML, plyr, parallel, doParallel, foreach, iterators, ProtGenerics
System Requirements
URL

Suggests	knitr, testthat
Linking To
Enhances
Depends On Me
Imports Me	MSnbase, MSnID, TargetDecoy
Suggests Me	mzR, PepMapViz, PSMatch, RforProteomics
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	mzID_1.51.0.tar.gz
Windows Binary (x86_64)	mzID_1.51.0.zip (64-bit only)
macOS Binary (big-sur-x86_64)	mzID_1.51.0.tgz
macOS Binary (sonoma-arm64)	mzID_1.51.0.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