Package: msmsTests
Type: Package
Title: LC-MS/MS Differential Expression Tests
Version: 1.50.0
Date: 2013-10-02
Author: Josep Gregori, Alex Sanchez, and Josep Villanueva
Maintainer: Josep Gregori i Font <josep.gregori@gmail.com>
Depends: R (>= 3.0.1), MSnbase, msmsEDA
Imports: edgeR, qvalue
Suggests: xtable
Description: Statistical tests for label-free LC-MS/MS data by spectral
        counts, to discover differentially expressed proteins between
        two biological conditions. Three tests are available: Poisson
        GLM regression, quasi-likelihood GLM regression, and the
        negative binomial of the edgeR package.The three models admit
        blocking factors to control for nuissance variables.To assure a
        good level of reproducibility a post-test filter is available,
        where we may set the minimum effect size considered biologicaly
        relevant, and the minimum expression of the most abundant
        condition.
License: GPL-2
biocViews: ImmunoOncology, Software, MassSpectrometry, Proteomics
Config/pak/sysreqs: cmake libglpk-dev make libicu-dev libuv1-dev
        libxml2-dev libnetcdf-dev libssl-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 12:38:00 UTC
RemoteUrl: https://github.com/bioc/msmsTests
RemoteRef: RELEASE_3_23
RemoteSha: c41561b2db34f7be28ff5d9f5d25f42e7d8d5190
NeedsCompilation: no
Packaged: 2026-05-04 09:03:42 UTC; root
Built: R 4.6.0; ; 2026-05-04 09:24:21 UTC; unix
