MSstats

DOI: 10.18129/B9.bioc.MSstats    

Protein Significance Analysis in DDA, SRM and DIA for Label-free or Label-based Proteomics Experiments

Bioconductor version: Release (3.6)

A set of tools for statistical relative protein significance analysis in DDA, SRM and DIA experiments.

Author: Meena Choi [aut, cre], Cyril Galitzine [aut], Tsung-Heng Tsai [aut], Olga Vitek [aut]

Maintainer: Meena Choi <mnchoi67 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("MSstats")

Documentation

HTML	R Script	MSstats: Protein/Peptide significance analysis
PDF		Reference Manual
Text		NEWS

Details

biocViews	MassSpectrometry, Normalization, Proteomics, QualityControl, Software, TimeCourse
Version	3.10.6
In Bioconductor since	BioC 2.13 (R-3.0) (4.5 years)
License	Artistic-2.0
Depends	R (>= 3.4)
Imports	Rcpp, lme4, marray, limma, gplots, ggplot2, methods, grid, ggrepel, preprocessCore, MSnbase, reshape2, survival, minpack.lm, utils, grDevices, graphics, stats, doSNOW, snow, foreach, data.table, MASS, dplyr, tidyr, purrr, stringr, broom
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown
SystemRequirements
Enhances
URL	http://msstats.org
BugReports	https://groups.google.com/forum/#!forum/msstats
Depends On Me
Imports Me
Suggests Me	MSstatsBioData
Build Report

Package Archives

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

Source Package	MSstats_3.10.6.tar.gz
Windows Binary	MSstats_3.10.6.zip
Mac OS X 10.11 (El Capitan)	MSstats_3.10.6.tgz
Source Repository	git clone https://git.bioconductor.org/packages/MSstats
Package Short Url	http://bioconductor.org/packages/MSstats/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.6	Source Archive