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 [http://artms.org](http://artms.org) for details.

README.md artMS: Analytical R Tools for Mass Spectrometry

Vignettes Man pages API and functions Files

Package details
Author	David Jimenez-Morales [aut, cre] (<https://orcid.org/0000-0003-4356-6461>), Alexandre Rosa Campos [aut, ctb] (<https://orcid.org/0000-0003-3988-7764>), John Von Dollen [aut], Nevan Krogan [aut] (<https://orcid.org/0000-0003-4902-337X>), Danielle Swaney [aut, ctb] (<https://orcid.org/0000-0001-6119-6084>)
Bioconductor views	Annotation BiomedicalInformatics Clustering DifferentialExpression GeneSetEnrichment ImmunoOncology MassSpectrometry MultipleComparison Normalization Proteomics QualityControl SystemsBiology
Maintainer	David Jimenez-Morales <biodavidjm@gmail.com>
License	GPL (>= 3) + file LICENSE
Version	1.8.3
URL	http://artms.org
Package repository	View on Bioconductor
Installation	Install the latest version of this package by entering the following in R: `if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("artMS")`