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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 bsc.fu-berlin.de> |
| BugReports: | https://github.com/cbielow/PTXQC/issues |
| License: | BSD_3_clause + file LICENSE |
| URL: | https://github.com/cbielow/PTXQC |
| NeedsCompilation: | no |
| SystemRequirements: | pandoc (http://pandoc.org) for building Vignettes and output reports as HTML |
| Citation: | PTXQC citation info |
| Materials: | README NEWS |
| In views: | Omics |
| CRAN checks: | PTXQC results |
| Package source: | PTXQC_1.1.1.tar.gz |
| Windows binaries: | r-devel: PTXQC_1.1.1.zip, r-release: PTXQC_1.1.1.zip, r-oldrel: PTXQC_1.1.1.zip |
| 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 imports: | RKorAPClient |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.