recipe bioconductor-artms

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.



GPL (>= 3) + file LICENSE



package bioconductor-artms

(downloads) docker_bioconductor-artms


1.0.10-0, 1.0.1-0

Depends bioconductor-annotationdbi


Depends bioconductor-biomart


Depends bioconductor-complexheatmap


Depends bioconductor-limma


Depends bioconductor-msstats






Depends r-base


Depends r-bit64

Depends r-circlize

Depends r-cluster

Depends r-corrplot

Depends r-data.table

Depends r-dplyr

Depends r-factoextra

Depends r-factominer

Depends r-getopt

Depends r-ggdendro

Depends r-ggplot2

Depends r-ggrepel

Depends r-gplots

Depends r-gprofiler

Depends r-openxlsx

Depends r-performanceanalytics

Depends r-pheatmap

Depends r-plotly

Depends r-plyr

Depends r-rcolorbrewer

Depends r-reshape2

Depends r-seqinr

Depends r-stringr

Depends r-tidyr

Depends r-upsetr

Depends r-venndiagram

Depends r-yaml



With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-artms

and update with:

conda update bioconductor-artms

or use the docker container:

docker pull<tag>

(see bioconductor-artms/tags for valid values for <tag>)