Package: artMS
Type: Package
Title: Analytical R tools for Mass Spectrometry
Version: 1.6.0
Date: 2020-04-25
Author: David Jimenez-Morales, Alexandre Rosa Campos, John Von Dollen.
Maintainer: David Jimenez-Morales <biodavidjm@gmail.com>
Description: 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.
License: GPL (>= 3) + file LICENSE
URL: https://github.com/biodavidjm/artMS
BugReports: https://github.com/biodavidjm/artMS/issues
Depends: R (>= 3.6.0)
Imports: AnnotationDbi, biomaRt, bit64, circlize, cluster,
        ComplexHeatmap, corrplot, data.table, dplyr, factoextra,
        FactoMineR, getopt, ggdendro, ggplot2, gplots, ggrepel,
        gProfileR, graphics, grDevices, grid, limma, MSstats, openxlsx,
        org.Hs.eg.db, org.Mm.eg.db, PerformanceAnalytics, pheatmap,
        plotly, plyr, RColorBrewer, scales, seqinr, stats, stringr,
        tidyr, UpSetR, utils, VennDiagram, yaml
Suggests: BiocStyle, knitr, rmarkdown, testthat
Encoding: UTF-8
LazyLoad: yes
LazyData: true
biocViews: Proteomics, DifferentialExpression, BiomedicalInformatics,
        SystemsBiology, MassSpectrometry, Annotation, QualityControl,
        GeneSetEnrichment, Clustering, Normalization, ImmunoOncology,
        MultipleComparison
NeedsCompilation: no
VignetteBuilder: knitr
RoxygenNote: 7.0.2
Roxygen: list(markdown = TRUE)
git_url: https://git.bioconductor.org/packages/artMS
git_branch: RELEASE_3_11
git_last_commit: c7580ff
git_last_commit_date: 2020-04-27
Date/Publication: 2020-04-27
Packaged: 2020-04-28 03:38:41 UTC; biocbuild
Built: R 4.0.0; ; 2020-04-28 14:06:46 UTC; unix
