proteoQC: An R package for proteomics data quality control

This package creates a HTML format QC report for MS/MS-based proteomics data. The report is intended to allow the user to quickly assess the quality of proteomics data.

AuthorBo Wen <wenbo@genomics.cn>, Laurent Gatto <lg390@cam.ac.uk>
Date of publicationNone
MaintainerBo Wen <wenbo@genomics.cn>
LicenseLGPL-2
Version1.10.0

View on Bioconductor

Functions

addSummaryChart Man page
calcMSQCMetrics Man page
chargeStat Man page
cntStat Man page
combineRun Man page
createTargetDecoyDB Man page
getEnzyme Man page
getMods Man page
labelRatio Man page
loadmsQCres Man page
msQCpipe Man page
plotBioRepVenn Man page
plotFractionIDResult Man page
plotMS1Error Man page
plotMS2Error Man page
plotMS2Error_obsolete Man page
plotSampleIDResultErrorBar Man page
plotSampleVenn Man page
plotTechRepVenn Man page
print.msQCres Man page
proteinGroup Man page
reportHTML Man page
runTandem Man page
showEnzyme Man page
showMods Man page

Files

proteoQC/DESCRIPTION
proteoQC/NAMESPACE
proteoQC/NEWS
proteoQC/R
proteoQC/R/ms12QC.R proteoQC/R/msQC.R proteoQC/R/report.R proteoQC/R/tools.R proteoQC/R/visualization.R
proteoQC/build
proteoQC/build/vignette.rds
proteoQC/inst
proteoQC/inst/config
proteoQC/inst/config/enzyme.txt
proteoQC/inst/config/mods.txt
proteoQC/inst/db
proteoQC/inst/db/crap.fasta
proteoQC/inst/db/crap.txt
proteoQC/inst/doc
proteoQC/inst/doc/proteoQC.R
proteoQC/inst/doc/proteoQC.Rnw
proteoQC/inst/doc/proteoQC.pdf
proteoQC/inst/extdata
proteoQC/inst/extdata/PXD000864-design.txt
proteoQC/inst/extdata/mgf.zip
proteoQC/inst/extdata/pep.zip
proteoQC/inst/extdata/qc.zip
proteoQC/inst/scripts
proteoQC/inst/scripts/make_big_qc.R
proteoQC/inst/scripts/skim.r
proteoQC/inst/tool
proteoQC/inst/tool/tandemparser.jar
proteoQC/inst/unitTests
proteoQC/inst/unitTests/test_loadmsQCres.R
proteoQC/man
proteoQC/man/addSummaryChart.Rd proteoQC/man/calcMSQCMetrics.Rd proteoQC/man/chargeStat.Rd proteoQC/man/cntStat.Rd proteoQC/man/combineRun.Rd proteoQC/man/createTargetDecoyDB.Rd proteoQC/man/getEnzyme.Rd proteoQC/man/getMods.Rd proteoQC/man/labelRatio.Rd proteoQC/man/loadmsQCres.Rd proteoQC/man/msQCpipe.Rd proteoQC/man/plotBioRepVenn.Rd proteoQC/man/plotFractionIDResult.Rd proteoQC/man/plotMS1Error.Rd proteoQC/man/plotMS2Error.Rd proteoQC/man/plotMS2Error_obsolete.Rd proteoQC/man/plotSampleIDResultErrorBar.Rd proteoQC/man/plotSampleVenn.Rd proteoQC/man/plotTechRepVenn.Rd proteoQC/man/print.msQCres.Rd proteoQC/man/proteinGroup.Rd proteoQC/man/reportHTML.Rd proteoQC/man/runTandem.Rd proteoQC/man/showEnzyme.Rd proteoQC/man/showMods.Rd
proteoQC/src
proteoQC/src/utilities.cpp
proteoQC/tests
proteoQC/tests/runTests.R
proteoQC/vignettes
proteoQC/vignettes/proteoQC.Rnw
proteoQC/vignettes/proteoQC.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.