data.table, ggplot2 (>= 2.2), ggdendro, graphics, grid,
gridExtra, grDevices, gtable, kableExtra, knitr (>= 1.10),
methods, plyr, proto, RColorBrewer, reshape2, rmarkdown,
seqinr, stats, utils, yaml

Generates Proteomics (PTX) quality control (QC) reports for shotgun LC-MS data analyzed with the
MaxQuant software suite.
Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format.
Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015) 'doi:10.1021/acs.jproteome.5b00780'.

Quality Report Generation for MaxQuant and mzTab Results
Generates Proteomics (PTX) quality control (QC) reports for shotgun LC-MS data analyzed with the
MaxQuant software suite (from .txt files) or mzTab files (ideally from OpenMS 'QualityControl' tool).
Reports are customizable (target thresholds, subsetting) and available in HTML or PDF format.
Published in J. Proteome Res., Proteomics Quality Control: Quality Control Software for MaxQuant Results (2015)
<doi:10.1021/acs.jproteome.5b00780>.
data.table, ggplot2 (>= 2.2), ggdendro, grid, grDevices,
gtable, kableExtra, knitr (>= 1.10), methods, plyr,
RColorBrewer, reshape2, rmarkdown, seqinr, stats, utils,
UpSetR, yaml

Chris Bielow [aut, cre],
Juliane Schmachtenberg [ctb],
Swenja Wagner [ctb],
Patricia Scheil [ctb],
Tom Waschischek [ctb],
Guido Mastrobuoni [dtc, rev]
data.table, ggplot2 (>= 2.2), ggdendro, grid, grDevices,
gtable, jsonlite, kableExtra, knitr (>= 1.10), methods,
ontologyIndex, plyr, RColorBrewer, reshape2, rmarkdown, seqinr,
stats, utils, UpSetR, yaml

data.table, ggplot2 (>= 2.2), ggdendro, grid, grDevices,
gtable, jsonlite, kableExtra, knitr (>= 1.10), methods,
ontologyIndex, plyr, R6, R6P, RColorBrewer, reshape2,
rmarkdown, seqinr, stats, utils, UpSetR, xml2, yaml

data.table, ggplot2 (>= 2.2), ggdendro, grid, grDevices,
gtable, htmlTable, jsonlite, knitr (>= 1.10), magrittr,
methods, ontologyIndex, plyr, R6, R6P, RColorBrewer, reshape2,
rmarkdown, seqinr, stats, utils, UpSetR, xml2, yaml