API for gagneurlab/OUTRIDER
OUTRIDER - OUTlier in RNA-Seq fInDER

Global functions
OUTRIDER Man page Source code
OutriderDataSet Man page Source code
OutriderDataSet-class Man page
ZscoreMatrix Source code
aberrant Man page Source code
autoCorrect Man page Source code
autoCorrectPython Man page Source code
autoCorrectR Source code
checkAutoCorrectExists Source code
checkCountRequirements Source code
checkNames Source code
checkOutriderDataSet Source code
checkSizeFactors Source code
compileResults Source code
computeGeneLength Man page Source code
computeLatentSpace Man page Source code
computePvalues Man page
computePvalues,OutriderDataSet-method Man page Man page
computeZscores Man page
computeZscores,OutriderDataSet-method Man page
counts Man page
counts,OutriderDataSet-method Man page
counts.OutriderDataSet Source code
counts.replace.OutriderDataSet Source code
counts<-,OutriderDataSet,matrix-method Man page Man page
dens Source code
estimateSizeFactors Man page
estimateSizeFactors,OutriderDataSet-method Man page Man page
estimateSizeFactors.OUTRIDER Source code
evalAutoCorrection Source code
evalLoss Source code
filterExp Source code
filterExpression Man page
filterExpression,OutriderDataSet-method Man page
filterMinCounts Source code
findEncodingDim Man page Source code
fit Man page
fit,OutriderDataSet-method Man page Man page
fitNB Source code
fitNegBinom Source code
fpkm Man page
fpm Man page
getBestQ Source code
getBias Source code
getDispEstsData Source code
getGeneIndex Source code
getWeights Source code
getXColors Source code
gradLogLiklihood Source code
gradloglikelihood Source code
initialSizeMu Source code
injectOutliers Source code
log2fc Source code
loglikelihood Source code
loss Source code
lossGrad Source code
makeExampleOutriderDataSet Man page Source code
normFactors.replace.OutriderDataSet Source code
normalizationFactors Man page
normalizationFactors,OutriderDataSet-method Man page
normalizationFactors.OutriderDataSet Source code
normalizationFactors<-,OutriderDataSet,DataFrame-method Man page Man page
normalizationFactors<-,OutriderDataSet,NULL-method Man page Man page
normalizationFactors<-,OutriderDataSet,data.frame-method Man page
normalizationFactors<-,OutriderDataSet,matrix-method Man page Man page
pVal Source code
pValMatrix Source code
padjMatrix Source code
parametricDispersionFit Source code
plotAberrantPerSample Man page Man page Source code
plotCountCorHeatmap Man page Man page Source code
plotCountCorHeatmapPlotly Source code
plotDispEsts Man page
plotDispEsts,OutriderDataSet-method Man page
plotDispEsts.OUTRIDER Source code
plotExpressionRank Man page Man page Source code
plotFPKM Man page Man page Source code
plotFunctions Man page
plotPowerAnalysis Man page Man page Source code
plotQQ Man page Man page Source code
plotVolcano Man page Source code
predictC Source code
results Man page
results,OutriderDataSet-method Man page
sdLogScale Source code
showOutriderDataSet Source code
sizeFactors Man page
sizeFactors,OutriderDataSet-method Man page Man page
sizeFactors.OutriderDataSet Source code
sizeFactors.replace.OutriderDataSet Source code
sizeFactors<- Man page
sizeFactors<-,OutriderDataSet,numeric-method Man page Man page
truncLogLiklihood Source code
validateCounts Source code
validateOutriderDataSet Source code
gagneurlab/OUTRIDER documentation built on July 16, 2018, 9:01 p.m.