MSGFplus

DOI: 10.18129/B9.bioc.MSGFplus    

An interface between R and MS-GF+

Bioconductor version: Release (3.12)

This package contains function to perform peptide identification using the MS-GF+ algorithm. The package contains functionality for building up a parameter set both in code and through a simple GUI, as well as running the algorithm in batches, potentially asynchronously.

Author: Thomas Lin Pedersen

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

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

Installation

To install this package, start R (version "4.0") and enter:

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

BiocManager::install("MSGFplus")

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("MSGFplus")

 

HTML R Script Using MSGFgui
PDF   Reference Manual
Text   NEWS

Details

biocViews ImmunoOncology, MassSpectrometry, Proteomics, Software
Version 1.24.0
In Bioconductor since BioC 3.0 (R-3.1) (6 years)
License GPL (>= 2)
Depends methods
Imports mzID, ProtGenerics
LinkingTo
Suggests knitr, testthat
SystemRequirements Java (>= 1.7)
Enhances
URL
Depends On Me proteomics
Imports Me MSGFgui
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package MSGFplus_1.24.0.tar.gz
Windows Binary MSGFplus_1.24.0.zip
macOS 10.13 (High Sierra) MSGFplus_1.24.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/MSGFplus
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/MSGFplus
Package Short Url https://bioconductor.org/packages/MSGFplus/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: