API for edgeR
Empirical Analysis of Digital Gene Expression Data in R

Global functions
CompressedMatrix Man page
CompressedMatrix-class Man page
DGEExact-class Man page
DGEGLM-class Man page
DGELRT-class Man page
DGEList Man page Source code
DGEList-class Man page
Ops.CompressedMatrix Man page Source code
TopTags-class Man page
WLEB Man page Source code
[.CompressedMatrix Man page
[.DGEExact Man page
[.DGEGLM Man page
[.DGELRT Man page
[.DGEList Man page
[.TopTags Man page
addPriorCount Man page Source code
adjustedProfileLik Man page Source code
as.data.frame.TopTags Man page Source code
as.matrix.CompressedMatrix Man page Source code
as.matrix.DGEList Man page Source code
aveLogCPM Man page Source code
aveLogCPM.DGEGLM Man page Source code
aveLogCPM.DGEList Man page Source code
aveLogCPM.default Man page Source code
binMeanVar Man page Source code
binomTest Man page Source code
calcFactorQuantile Source code
calcFactorRLE Source code
calcFactorWeighted Source code
calcNormFactors Man page Source code
calcNormFactors.DGEList Man page Source code
calcNormFactors.default Man page Source code
calcNormOffsetsforChIP Man page Source code
calcResid Source code
camera.DGEList Man page Source code
cbind Man page
cbind.CompressedMatrix Man page Source code
cbind.DGEList Man page Source code
comboGroups Source code
commonCondLogLikDerDelta Man page Source code
compressDispersions Source code
compressOffsets Source code
compressPrior Source code
compressWeights Source code
compute_nbdeviance Source code
condLogLikDerDelta Man page Source code
condLogLikDerSize Man page Source code
cpm Man page Source code
cpm.DGEList Man page Source code
cpm.default Man page Source code
cpmByGroup Man page Source code
cpmByGroup.DGEList Man page Source code
cpmByGroup.default Man page Source code
cutWithMinN Man page Source code
decideTests.DGEExact Man page
decideTests.DGELRT Man page
decideTestsDGE Man page Source code
designAsFactor Man page Source code
dglmStdResid Man page Source code
diffSpliceDGE Man page Source code
dim.CompressedMatrix Man page Source code
dim.DGEExact Man page
dim.DGEGLM Man page Source code
dim.DGELRT Man page Source code
dim.DGEList Man page Source code
dim.TopTags Man page
dimnames.DGEExact Man page
dimnames.DGEGLM Man page Source code
dimnames.DGELRT Man page
dimnames.DGEList Man page Source code
dimnames.TopTags Man page Source code
dimnames<-.DGEExact Man page
dimnames<-.DGEGLM Man page
dimnames<-.DGELRT Man page
dimnames<-.DGEList Man page
dispBinTrend Man page Source code
dispCoxReid Man page Source code
dispCoxReidInterpolateTagwise Man page Source code
dispCoxReidPowerTrend Man page Source code
dispCoxReidSplineTrend Man page Source code
dispDeviance Man page Source code
dispPearson Man page Source code
dropEmptyLevels Man page Source code
edgeR Man page
edgeR-package Man page
edgeRUsersGuide Man page Source code
equalizeLibSizes Man page Source code
equalizeLibSizes.DGEList Man page Source code
equalizeLibSizes.default Man page Source code
estimateCommonDisp Man page Source code
estimateCommonDisp.DGEList Man page Source code
estimateCommonDisp.default Man page Source code
estimateDisp Man page Source code
estimateDisp.DGEList Man page Source code
estimateDisp.default Man page Source code
estimateExonGenewiseDisp Man page Source code
estimateGLMCommonDisp Man page Source code
estimateGLMCommonDisp.DGEList Man page Source code
estimateGLMCommonDisp.default Man page Source code
estimateGLMRobustDisp Man page Source code
estimateGLMTagwiseDisp Man page Source code
estimateGLMTagwiseDisp.DGEList Man page Source code
estimateGLMTagwiseDisp.default Man page Source code
estimateGLMTrendedDisp Man page Source code
estimateGLMTrendedDisp.DGEList Man page Source code
estimateGLMTrendedDisp.default Man page Source code
estimateTagwiseDisp Man page Source code
estimateTagwiseDisp.DGEList Man page Source code
estimateTagwiseDisp.default Man page Source code
estimateTrendedDisp Man page Source code
estimateTrendedDisp.DGEList Man page Source code
estimateTrendedDisp.default Man page Source code
exactTest Man page Source code
exactTestBetaApprox Man page Source code
exactTestByDeviance Man page Source code
exactTestBySmallP Man page Source code
exactTestDoubleTail Man page Source code
expandAsMatrix Man page Source code
fry.DGEList Man page Source code
getCounts Man page Source code
getDispersion Man page Source code
getDispersions Man page Source code
getOffset Man page Source code
getPriorN Man page Source code
getRecord Source code
gini Man page Source code
glmFit Man page Source code
glmFit.DGEList Man page Source code
glmFit.default Man page Source code
glmLRT Man page Source code
glmQLFTest Man page Source code
glmQLFit Man page Source code
glmQLFit.DGEList Man page Source code
glmQLFit.default Man page Source code
glmTreat Man page Source code
goana.DGEExact Man page
goana.DGELRT Man page Source code
gof Man page Source code
goodTuring Man page Source code
goodTuringPlot Man page Source code
goodTuringProportions Man page Source code
kegga.DGEExact Man page
kegga.DGELRT Man page Source code
locfitByCol Man page Source code
loessByCol Man page Source code
maPlot Man page Source code
makeCompressedMatrix Man page Source code
maximizeInterpolant Man page Source code
maximizeQuadratic Man page Source code
mglm Man page
mglmLevenberg Man page Source code
mglmOneGroup Man page Source code
mglmOneWay Man page Source code
movingAverageByCol Man page Source code
mroast.DGEList Man page Source code
nbinomDeviance Man page Source code
nbinomUnitDeviance Man page Source code
normalizeChIPtoInput Man page Source code
ntegratepnorm Source code
onAttach Source code
plotBCV Man page Source code
plotExonUsage Man page Source code
plotMD.DGEExact Man page Source code
plotMD.DGEGLM Man page Source code
plotMD.DGELRT Man page Source code
plotMD.DGEList Man page Source code
plotMDS.DGEList Man page Source code
plotMeanVar Man page Source code
plotQLDisp Man page Source code
plotSmear Man page Source code
plotSpliceDGE Man page Source code
predFC Man page Source code
predFC.DGEList Man page Source code
predFC.default Man page Source code
processAmplicons Man page Source code
psi.huber.matrix Source code
q2qnbinom Man page Source code
q2qpois Man page Source code
rbind.CompressedMatrix Man page Source code
rbind.DGEList Man page Source code
readDGE Man page Source code
residDF Source code
roast.DGEList Man page Source code
romer.DGEList Man page Source code
rpkm Man page Source code
rpkm.DGEList Man page Source code
rpkm.default Man page Source code
rpkmByGroup Man page Source code
rpkmByGroup.DGEList Man page Source code
rpkmByGroup.default Man page Source code
sAllZero Source code
sBelowPoissonBound Source code
scaleOffset Man page Source code
scaleOffset.DGEList Man page Source code
scaleOffset.default Man page Source code
show,DGEExact-method Man page
show,DGEGLM-method Man page
show,DGELRT-method Man page
show,TopTags-method Man page
spliceVariants Man page Source code
splitIntoGroups Man page Source code
splitIntoGroups.DGEList Man page Source code
splitIntoGroups.default Man page Source code
splitIntoGroupsPseudo Man page Source code
strip_to_matrix Source code
subsetMatrixWithoutCopying Source code
subsetting Man page
sumTechReps Man page Source code
sumTechReps.DGEList Man page Source code
sumTechReps.default Man page Source code
systematicSubset Man page Source code
thinCounts Man page Source code
topSpliceDGE Man page Source code
topTags Man page Source code
validDGEList Man page Man page Source code
weightedCondLogLikDerDelta Man page Source code
zscoreDGE Source code
zscoreNBinom Man page Source code
edgeR documentation built on Nov. 17, 2017, 9:48 a.m.