PTXQC: 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>.

Version: 1.1.1
Depends: R (≥ 3.3.0)
Imports: data.table, ggplot2 (≥ 2.2), ggdendro, grid, gridExtra, grDevices, gtable, htmlTable, knitr (≥ 1.10), magrittr, methods, plyr, R6, R6P, RColorBrewer, reshape2, rmarkdown, rmzqc (≥ 0.5.0), seqinr, stats, utils, UpSetR, xml2, yaml
Suggests: testthat
Published: 2024-03-11
DOI: 10.32614/CRAN.package.PTXQC
Author: Chris Bielow [aut, cre], Juliane Schmachtenberg [ctb], Swenja Wagner [ctb], Patricia Scheil [ctb], Tom Waschischek [ctb], Guido Mastrobuoni [dtc, rev]
Maintainer: Chris Bielow <chris.bielow at>
License: BSD_3_clause + file LICENSE
NeedsCompilation: no
SystemRequirements: pandoc ( for building Vignettes and output reports as HTML
Citation: PTXQC citation info
Materials: README NEWS
In views: Omics
CRAN checks: PTXQC results


Reference manual: PTXQC.pdf
Vignettes: Basic R-Usage Guide for PTXQC
Customizing PTXQC reports
Drag'n'drop Usage Guide for PTXQC
Frequently asked questions for PTXQC
Input/Output data for PTXQC
List of Metrics


Package source: PTXQC_1.1.1.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): PTXQC_1.1.1.tgz, r-oldrel (arm64): PTXQC_1.1.1.tgz, r-release (x86_64): PTXQC_1.1.1.tgz, r-oldrel (x86_64): PTXQC_1.1.1.tgz
Old sources: PTXQC archive

Reverse dependencies:

Reverse imports: RKorAPClient


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