artMS: Analytical R tools for Mass Spectrometry

artMS provides a set of tools for the analysis of proteomics label-free datasets. It takes as input the MaxQuant search result output (evidence.txt file) and performs quality control, relative quantification using MSstats, downstream analysis and integration. artMS also provides a set of functions to re-format and make it compatible with other analytical tools, including, SAINTq, SAINTexpress, Phosfate, and PHOTON. Check []( for details.

Package details

AuthorDavid Jimenez-Morales [aut, cre] (<>), Alexandre Rosa Campos [aut, ctb] (<>), John Von Dollen [aut], Nevan Krogan [aut] (<>), Danielle Swaney [aut, ctb] (<>)
Bioconductor views Annotation BiomedicalInformatics Clustering DifferentialExpression GeneSetEnrichment ImmunoOncology MassSpectrometry MultipleComparison Normalization Proteomics QualityControl SystemsBiology
MaintainerDavid Jimenez-Morales <>
LicenseGPL (>= 3) + file LICENSE
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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artMS documentation built on April 14, 2021, 6 p.m.