API for hafenr/MACode
Functions and code snippets for my master thesis

Global functions
annotateComplexFeatures Man page Source code
annotateComplexFeaturesAlt Man page Source code
annotateProteinTraces Man page Source code
apexStringToDF Man page Source code
assessComplexFeatures Source code
assessComplexFeaturesWithSEC Man page Source code
calcFPR Man page Source code
calcNCorrelatingTraces Source code
calcTPR Man page Source code
calculateDetectionStatsCC Man page Source code
calculateDetectionStatsPC Man page Source code
computeSiteLocalizationRate Man page Source code
computeWindowedCorrelation Man page Source code
convertToPCComplexFeatureFormat Man page Source code
convertToPeptideCCData Man page Source code
corum.complex.protein.assoc Man page
createCCInputData Man page Source code
createManualComplexAnnotations Man page Source code
deconvProteinTraces Man page Source code
detectGroupsWithinWindow Man page Source code Source code
detectSubgroupsSW Man page Source code
diffScore Source code
e4.input.proteins Man page
e4.peptide.traces.wide Man page
e4.peptide.traces.wide.filtered Man page
evaluateTargetedGWGridSearch Source code
g Source code
imputePartialPeakgroupCompletness Man page Source code
imputeProteinConcentrations Man page Source code
longPepTracesToWide Man page Source code
longProtTracesToWide Man page Source code
makeROC Man page Source code
makeROCWithSEC Man page Source code
makeStartParams Man page Source code
manual.annotations.full Man page
manual.annotations.full.complete Man page
manual.annotations.partial Man page
manual.annotations.partial.imputed.win14.corr0.7 Man page
manual.annotations.raw.mheusel Man page
manual.annotations.raw.rhafen Man page
mergeManualComplexAnnotations Man page Source code
mergeRTs Man page Source code
mergeTargetedSWGridSearch Source code
multiplot Source code
nlsGaussianSum Man page Source code
nlsGaussianSumCV Man page Source code
nlsGaussianSumCV2 Man page Source code
pearsonCorrScore Source code
plot.swResult Man page Source code
plotROC Man page Source code Source code
plotSiteLocalizationRate Man page Source code
plotTraces Man page Source code
plotTracesWithFeaturesCC Man page Source code
predict.nlsGaussianSum Man page Source code
produceFinalManualAnnotations Source code
produceProteinTraces Man page Source code
protein.traces.2peps Man page
readManualAnnotationFile Man page Source code
removeStretchesFilter Man page Source code
requireAtLeastXPeptides Man page Source code
retainXMostIntensePeptides Man page Source code
saveFeaturesForDC Source code
slidingWindowCorrelation Man page Source code
targetedSW Source code
targetedSWGridSearch Source code
widePepTracesToLong Man page Source code
wideProtTracesToLong Man page Source code
hafenr/MACode documentation built on May 14, 2017, 10:20 p.m.