API for DESeq
Differential gene expression analysis based on the negative binomial distribution
| Global functions | |
|---|---|
| .onAttach | Source code |
| CountDataSet-class | Man page |
| adjustScvForBias | Man page Source code |
| conditions | Man page |
| conditions,CountDataSet-method | Man page |
| conditions<-,CountDataSet-method | Man page |
| counts | Man page |
| counts,CountDataSet-method | Man page |
| counts<-,CountDataSet,matrix-method | Man page |
| dispTable | Man page |
| dispTable,CountDataSet-method | Man page |
| estimateAndFitDispersionsFromBaseMeansAndVariances | Source code |
| estimateAndFitDispersionsWithCoxReid | Source code |
| estimateDispersions | Man page |
| estimateDispersions,CountDataSet-method | Man page |
| estimateSizeFactors | Man page |
| estimateSizeFactors,CountDataSet-method | Man page |
| estimateSizeFactorsForMatrix | Man page Source code |
| estimateVarianceFunctions | Man page Source code |
| fitInfo | Man page Source code |
| fitNbinomGLMs | Man page Source code |
| fitNbinomGLMsForMatrix | Man page Source code |
| getBaseMeansAndPooledVariances | Source code |
| getBaseMeansAndVariances | Man page Source code |
| getVarianceStabilizedData | Man page Source code |
| makeExampleCountDataSet | Man page Source code |
| modelMatrixToConditionFactor | Source code |
| nbinomGLMTest | Man page Source code |
| nbinomTest | Man page Source code |
| nbinomTestForMatrices | Man page Source code |
| nbkd.sf | Man page Source code |
| newCountDataSet | Man page Source code |
| newCountDataSetFromHTSeqCount | Man page Source code |
| parametricDispersionFit | Source code |
| plotDispEsts | Man page Source code |
| plotMA | Man page Source code |
| plotPCA | Man page Source code |
| prepareScvBiasCorrectionFits | Source code |
| profileLogLikelihood | Source code |
| residualsEcdfPlot | Man page |
| safepredict | Source code |
| scvPlot | Man page Source code |
| sizeFactors | Man page |
| sizeFactors,CountDataSet-method | Man page |
| sizeFactors<-,CountDataSet,numeric-method | Man page |
| varianceFitDiagnostics | Man page |
| varianceStabilizingTransformation | Man page |
