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.
|Author||Josep Gregori, Alex Sanchez, and Josep Villanueva|
|Bioconductor views||ImmunoOncology MassSpectrometry Proteomics Software|
|Maintainer||Josep Gregori i Font <email@example.com>|
|Package repository||View on Bioconductor|
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