msmsTests

LC-MS/MS Differential Expression Tests

Bioconductor version: 3.23 · Package version: 1.50.0

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.

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

BiocManager::install("msmsTests")