API for PTXQC
Quality Report Generation for MaxQuant and mzTab Results

Global functions
%+%	Man page
.onAttach	Source code
CV	Man page Source code
FilenameMapper	Man page
FilenameMapper-class	Man page
LCS	Man page Source code
LCSn	Man page Source code
MQDataReader	Man page
MQDataReader-class	Man page
MzTabReader	Man page
MzTabReader-class	Man page
PTXQC	Man page
PTXQC-package	Man page
QCMetaFilenames	Man page
RSD	Man page Source code
RTalignmentTree	Man page Source code
ScoreInAlignWindow	Man page Source code
YAMLClass	Man page
YAMLClass-class	Man page
`%+%`	Source code
alignmentCheck	Man page Source code
appendEnv	Man page Source code
assembleMZQC	Man page Source code
assignBlocks	Man page Source code
boxplotCompare	Man page Source code
brewer.pal.Safe	Man page Source code
byX	Man page Source code
byXflex	Man page Source code
checkEnglishLocale	Man page Source code
checkInput	Source code
computeMatchRTFractions	Man page Source code
correctSetSize	Man page Source code
createReport	Man page Source code
createYaml	Man page Source code
darken	Man page Source code
del0	Man page Source code
delLCP	Man page Source code
delLCS	Man page Source code
findAlignReference	Man page Source code
fixCalibration	Man page Source code
flattenList	Man page Source code
getAbundanceClass	Man page Source code
getECDF	Man page Source code
getFileEncoding	Man page Source code
getFragmentErrors	Man page Source code
getHTMLTable	Man page Source code
getMQPARValue	Man page Source code
getMaxima	Man page Source code
getMetaData	Man page Source code
getMetaFilenames	Source code
getMetricsObjects	Man page Source code
getPCA	Man page Source code
getPeptideCounts	Man page Source code
getProteinCounts	Man page Source code
getQCHeatMap	Man page Source code
getReportFilenames	Man page Source code
getRunQualityTemplate	Man page Source code
ggAxisLabels	Man page Source code
ggText	Man page Source code
grepv	Man page Source code
idTransferCheck	Man page Source code
inMatchWindow	Man page Source code
lcpCount	Man page Source code
lcsCount	Man page Source code
longestCommonPrefix	Man page Source code
longestCommonSuffix	Man page Source code
modsToTable	Man page Source code
modsToTableByRaw	Man page Source code
mosaicize	Man page Source code
pasten	Man page Source code
pastet	Man page Source code
peakSegmentation	Man page Source code
peakWidthOverTime	Man page Source code
plotTable	Man page Source code
plotTableRaw	Man page Source code
plot_CalibratedMSErr	Man page Source code
plot_Charge	Man page Source code
plot_ContEVD	Man page Source code
plot_ContUser	Man page Source code
plot_ContUserScore	Man page Source code
plot_ContsPG	Man page Source code
plot_CountData	Man page Source code
plot_DataOverRT	Man page Source code
plot_IDRate	Man page Source code
plot_IDsOverRT	Man page Source code
plot_IonInjectionTimeOverRT	Man page Source code
plot_MBRAlign	Man page Source code
plot_MBRIDtransfer	Man page Source code
plot_MBRgain	Man page Source code
plot_MS2Decal	Man page Source code
plot_MS2Oversampling	Man page Source code
plot_MissedCleavages	Man page Source code
plot_RTPeakWidth	Man page Source code
plot_RatiosPG	Man page Source code
plot_ScanIDRate	Man page Source code
plot_TIC	Man page Source code
plot_TopN	Man page Source code
plot_TopNoverRT	Man page Source code
plot_UncalibratedMSErr	Man page Source code
plot_peptideMods	Man page Source code
pointsPutX	Man page Source code
print.PTXQC_table	Man page Source code
printWithFooter	Man page Source code
qcMetric	Man page
qcMetric-class	Man page
qcMetric_MSMSScans_TopNoverRT	Man page
qcMetric_MSMSScans_TopNoverRT-class	Man page
qualBestKS	Man page Source code
qualCentered	Man page Source code
qualCenteredRef	Man page Source code
qualGaussDev	Man page Source code
qualHighest	Man page Source code
qualLinThresh	Man page Source code
qualMedianDist	Man page Source code
qualUniform	Man page Source code
read.MQ	Man page Source code
renameFile	Man page Source code
repEach	Man page Source code
scale01linear	Man page Source code
scale_x_discrete_reverse	Man page Source code
scale_y_discrete_reverse	Man page Source code
shortenStrings	Man page Source code
simplifyNames	Man page Source code
supCount	Man page Source code
theme_blank	Man page Source code
thinOut	Man page Source code
thinOutBatch	Man page Source code
wait_for_writable	Man page Source code