MSGFplus
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see MSGFplus.
An interface between R and MS-GF+
Bioconductor version: 3.9
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("MSGFplus")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("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")| Using MSGFgui | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ImmunoOncology, MassSpectrometry, Proteomics, Software |
| Version | 1.18.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) (9.5 years) |
| License | GPL (>= 2) |
| Depends | methods |
| Imports | mzID, ProtGenerics |
| System Requirements | Java (>= 1.7) |
| URL |
See More
| Suggests | gWidgets, knitr, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | proteomics |
| Imports Me | MSGFgui |
| Suggests Me | RforProteomics |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MSGFplus_1.18.0.tar.gz |
| Windows Binary | MSGFplus_1.18.0.zip (32- & 64-bit) |
| Mac OS X 10.11 (El Capitan) | MSGFplus_1.18.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MSGFplus |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MSGFplus |
| Bioc Package Browser | https://code.bioconductor.org/browse/MSGFplus/ |
| Package Short Url | https://bioconductor.org/packages/MSGFplus/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |