msmsTests: LC-MS/MS Differential Expression Tests

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.

Package details

AuthorJosep Gregori, Alex Sanchez, and Josep Villanueva
Bioconductor views ImmunoOncology MassSpectrometry Proteomics Software
MaintainerJosep Gregori i Font <>
Package repositoryView on Bioconductor
Installation Install the latest version of this package by entering the following in R:
if (!requireNamespace("BiocManager", quietly = TRUE))


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msmsTests documentation built on Nov. 8, 2020, 5:25 p.m.