API for gmelloni/PrecisionTrialDrawer
A Tool to Analyze and Design NGS Based Custom Gene Panels
| Global functions | |
|---|---|
| .MAD | Source code |
| .alignSequencesSimple | Source code |
| .alnWeights | Source code |
| .annotateGeneLength | Source code |
| .annotateVariationLength | Source code |
| .bedCheck | Source code |
| .busyIndicator | Source code |
| .calPowerSamp | Source code |
| .calPowerSamp1 | Source code |
| .changeFactor | Source code |
| .checkDataAvailability | Source code |
| .checkGene_to_geneID | Source code |
| .checkRepos | Source code |
| .clustalOAlign | Source code |
| .createEmptyLowObj | Source code |
| .druggabilityCheck | Source code |
| .emptyPlotter | Source code |
| .entropySimple | Source code |
| .fromAAtoGenomic | Source code |
| .getCNA | Source code |
| .getExpression | Source code |
| .getLocalGeneMutations | Source code |
| .getMutations | Source code |
| .getMutationsSimple | Source code |
| .lfmSimple | Source code |
| .lmParamsSimple | Source code |
| .lmPlotSimple | Source code |
| .makeUniformModel | Source code |
| .mapMutationsSimple | Source code |
| .mergeOrder | Source code |
| .mergeThemAll | Source code |
| .mfrow | Source code |
| .multiplot | Source code |
| .newLowMACAsimple | Source code |
| .noNA | Source code |
| .nullProfileSimple | Source code |
| .opt2single | Source code |
| .profileDensity | Source code |
| .profileEntropy | Source code |
| .prop21Samps | Source code |
| .propCalPowerSamp | Source code |
| .rsToGenomicPosition | Source code |
| .sampleUnifEntropyL | Source code |
| .sampleUnifEntropyL.old | Source code |
| .saturationPlotter | Source code |
| .setupSimple | Source code |
| .shannon | Source code |
| .splitter | Source code |
| .subsetCNA | Source code |
| .subsetExpression | Source code |
| .subsetter | Source code |
| .superdup | Source code |
| .surv1Samps | Source code |
| .surv2Samps | Source code |
| .tumor.freqs.standardCheck | Source code |
| .tumor.weights.machine | Source code |
| .tumor.weights.standardCheck | Source code |
| .tumorFreqPlotter | Source code |
| .tumorFreqPlotterStack | Source code |
| .tumorFreqPlotterStackHTML | Source code |
| CancerPanel-class | Man page |
| PrecisionTrialDrawer | Man page |
| PrecisionTrialDrawer-package | Man page |
| appendRepo | Man page |
| appendRepo,CancerPanel-method | Man page |
| coocMutexPlot | Man page |
| coocMutexPlot,CancerPanel-method | Man page |
| coveragePlot | Man page |
| coveragePlot,CancerPanel-method | Man page |
| coverageStackPlot | Man page |
| coverageStackPlot,CancerPanel-method | Man page |
| cpArguments | Man page |
| cpArguments,CancerPanel-method | Man page |
| cpData | Man page |
| cpData,CancerPanel-method | Man page |
| cpDataSubset | Man page |
| cpDataSubset,CancerPanel-method | Man page |
| cpDesign | Man page |
| cpFreq | Man page |
| cpFreq,CancerPanel-method | Man page |
| cpObj | Man page |
| cpObj2 | Man page |
| dataExtractor | Man page |
| dataExtractor,CancerPanel-method | Man page |
| filterFusions | Man page |
| filterFusions,CancerPanel-method | Man page |
| filterMutations | Man page |
| filterMutations,CancerPanel-method | Man page |
| getAlterations | Man page |
| getAlterations,CancerPanel-method | Man page |
| newCancerPanel | Man page Source code |
| panelDesigner | Man page |
| panelDesigner,CancerPanel-method | Man page |
| panelOptimizer | Man page |
| panelOptimizer,CancerPanel-method | Man page |
| panelexample | Man page |
| propPowerSampleSize | Man page |
| propPowerSampleSize,CancerPanel-method | Man page |
| saturationPlot | Man page |
| saturationPlot,CancerPanel-method | Man page |
| show,CancerPanel-method | Man page |
| showCancerStudy | Man page Source code |
| showTumorType | Man page Source code |
| subsetAlterations | Man page |
| subsetAlterations,CancerPanel-method | Man page |
| survPowerSampleSize | Man page |
| survPowerSampleSize,CancerPanel-method | Man page |
| survPowerSampleSize1Arm | Man page |
| survPowerSampleSize1Arm,CancerPanel-method | Man page |
