/usr/lib/R/site-library/DESeq2/help/AnIndex is in r-bioc-deseq2 1.18.1-1.
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coef coef
coef.DESeqDataSet coef
collapseReplicates collapseReplicates
counts counts
counts,DESeqDataSet-method counts
counts<-,DESeqDataSet,matrix-method counts
DESeq DESeq
DESeqDataSet DESeqDataSet
DESeqDataSet-class DESeqDataSet
DESeqDataSetFromHTSeqCount DESeqDataSet
DESeqDataSetFromMatrix DESeqDataSet
DESeqDataSetFromTximport DESeqDataSet
DESeqResults DESeqResults
DESeqResults-class DESeqResults
DESeqTransform DESeqTransform
DESeqTransform-class DESeqTransform
design design
design,DESeqDataSet-method design
design<-,DESeqDataSet,formula-method design
dispersionFunction dispersionFunction
dispersionFunction,DESeqDataSet-method dispersionFunction
dispersionFunction<- dispersionFunction
dispersionFunction<-,DESeqDataSet,function-method dispersionFunction
dispersions dispersions
dispersions,DESeqDataSet-method dispersions
dispersions<- dispersions
dispersions<-,DESeqDataSet,numeric-method dispersions
estimateBetaPriorVar estimateBetaPriorVar
estimateDispersions estimateDispersions
estimateDispersions,DESeqDataSet-method estimateDispersions
estimateDispersionsFit estimateDispersionsGeneEst
estimateDispersionsGeneEst estimateDispersionsGeneEst
estimateDispersionsMAP estimateDispersionsGeneEst
estimateDispersionsPriorVar estimateDispersionsGeneEst
estimateMLEForBetaPriorVar estimateBetaPriorVar
estimateSizeFactors estimateSizeFactors
estimateSizeFactors,DESeqDataSet-method estimateSizeFactors
estimateSizeFactorsForMatrix estimateSizeFactorsForMatrix
fpkm fpkm
fpm fpm
getVarianceStabilizedData varianceStabilizingTransformation
lfcShrink lfcShrink
makeExampleDESeqDataSet makeExampleDESeqDataSet
nbinomLRT nbinomLRT
nbinomWaldTest nbinomWaldTest
normalizationFactors normalizationFactors
normalizationFactors,DESeqDataSet-method normalizationFactors
normalizationFactors<- normalizationFactors
normalizationFactors<-,DESeqDataSet,matrix-method normalizationFactors
normalizeGeneLength normalizeGeneLength
normTransform normTransform
plotCounts plotCounts
plotDispEsts plotDispEsts
plotDispEsts,DESeqDataSet-method plotDispEsts
plotMA plotMA
plotMA,DESeqDataSet-method plotMA
plotMA,DESeqResults-method plotMA
plotPCA plotPCA
plotPCA,DESeqTransform-method plotPCA
plotSparsity plotSparsity
priorInfo priorInfo
priorInfo,DESeqResults-method priorInfo
priorInfo<- priorInfo
priorInfo<-,DESeqResults,list-method priorInfo
removeResults results
replaceOutliers replaceOutliers
replaceOutliersWithTrimmedMean replaceOutliers
results results
resultsNames results
rlog rlog
rlogTransformation rlog
show show
show,DESeqResults-method show
sizeFactors sizeFactors
sizeFactors,DESeqDataSet-method sizeFactors
sizeFactors<-,DESeqDataSet,numeric-method sizeFactors
summary summary
summary.DESeqResults summary
unmix unmix
varianceStabilizingTransformation varianceStabilizingTransformation
vst vst
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