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 |
