API for IFIproteomics/LFQbench
Label Free Quantitation benchmark package

Global functions
FSWE.addModification Man page Source code
FSWE.addSoftwareConfiguration Man page Source code
FSWE.generateReports Man page Source code
FSWE.init.defaultModifications Source code
FSWE.init.defaultSoftwares Man page Source code
FSWE.initConfiguration Man page Source code
FSWE.listModifications Man page Source code
FSWE.postprocessSoftwareConfiguration Source code
FSWE.scaleIntensities Man page Source code
FSWE.setDatasetInjectionNames Man page Source code
FSWE.setSoftwareConfiguration Source code
FSWE.setSpeciesTags Man page Source code
FSWE.simExperiment Man page Source code
FSWE.switchSoftwareConfiguration Man page Source code
LFQbench.batchProcessFiles Man page Source code
LFQbench.batchProcessRootFolder Man page Source code
LFQbench.changeConfiguration Man page Source code
LFQbench.explainMetrics Man page Source code
LFQbench.getMetrics Man page Source code
LFQbench.initConfiguration Man page Source code
LFQbench.plotProteinDispersionBySample Man page Source code
LFQbench.plotProteinDispersionBySpecies Man page Source code
LFQbench.plotResultSet Man page Source code
LFQbench.plotSampleComposition Man page Source code
LFQbench.plotSpeciesLegends Man page Source code
LFQbench.plotToFile Man page Source code
LFQbench.processConfig Man page Source code
LFQbench.processDocSet Man page Source code
LFQbench.processFile Man page Source code
LFQbench.setDataRootFolder Man page Source code
LFQbench.showAllSpeciesQC Man page Source code
LFQbench.showDistributionDensityPlot Man page Source code
LFQbench.showLogRatioBoxPlot Man page Source code
LFQbench.showMetrics Man page Source code
LFQbench.showQuantBarPlot Man page Source code
LFQbench.showScatterAndBoxPlot Man page Source code
LFQbench.showScatterAndDensityPlot Man page Source code
LFQbench.showScatterPlot Man page Source code
LFQbench.showSingleSpeciesQC Man page Source code
addAxes Man page Source code
addScatterPointsForSpecies Source code
addScatterPointsForSpecies2 Source code
addXLab Man page Source code
addYLab Man page Source code
avgNA Man page Source code
avg_top_n Man page Source code
createNumericPairs Man page Source code
emptyPlot Man page Source code
evalCommandLineArguments Man page Source code
expandRange Source code
fixFileExt Source code
getCombinedLogRatios Man page Source code
getCombinedProteinRSDs Man page Source code
getFileExt Source code
getOutlierIdx Man page Source code
getPeptideIntensities Source code
getPeptideKeys Source code
getProteinKeys Source code
getQCFunction Source code Source code
getQuantileAccuracy Man page Source code
getQuantilePrecision Man page Source code
getQuantileSeparation Man page Source code
getRangedAccuracy Man page Source code
getRangedPrecision Man page Source code
getRangedSepRate Man page Source code
getSepRate Man page Source code
guessExperiment Source code
guessExperiment_wide Source code
guessInjection Source code
guessModelSoftware Source code
guessOrganism Man page Source code
guessSep Man page Source code
guessSoftwareSource Man page Source code
hLine Source code
loadLibrary Man page Source code
logIdStatistics Man page Source code
makeDocSet Man page Source code
makeEverythingInOneFolderDocSet Man page Source code
makeScatter Man page Source code
median_all Man page Source code
median_quench Man page Source code
mkdir Man page Source code
moveFiles Man page Source code
plotCVs Source code
plotLogRatios Source code
plotSpeciesLegend Man page Source code
qboxplot Man page Source code
rms Man page Source code
saveIDs Man page Source code
saveLogRatios Man page Source code
saveMetrics Man page Source code
saveSampleCVs Man page Source code
saveSampleMeans Man page Source code
saveSpeciesSeparation Man page Source code
scaleColor Source code
scaleTo01 Source code
single_hits Man page Source code
spiner Man page Source code
stopHere Man page Source code
sumNA Man page Source code
sum_top_n Man page Source code
take1stentry Man page Source code
vLine Source code
IFIproteomics/LFQbench documentation built on Jan. 9, 2018, 8:02 a.m.