API for Bioconductor/Biobase
Biobase: Base functions for Bioconductor

Global functions
$,AnnotatedDataFrame-method	Man page
$,eSet-method	Man page
$<-,AnnotatedDataFrame-method	Man page
$<-,Versions-method	Man page
$<-,eSet-method	Man page
.DollarNames.eSet	Source code
.as.numeric_version	Source code
.asValidVersions	Source code
.assayDataDimnames	Source code
.assayDataGets_NChannelSet	Source code
.buildBiobaseOpts	Source code
.canVersionCompare	Source code
.esApply	Source code
.harmonizeDimnames	Source code
.initContents	Source code
.invalid_NChannelAssayNames	Source code
.isValidVersion	Source code
.new_env_size	Source code
.onAttach	Source code
.onLoad	Source code
.onUnload	Source code
.showAnnotatedDataFrame	Source code
.validate_assayDataElementReplace	Source code
.wrapcat	Source code
Aggregate	Man page Source code
AnnotatedDataFrame	Man page
AnnotatedDataFrame,data.frame,data.frame-method	Man page
AnnotatedDataFrame,data.frame,missing-method	Man page
AnnotatedDataFrame,missing,missing-method	Man page
AnnotatedDataFrame-class	Man page
AssayData	Man page
AssayData-class	Man page
Biobase	Man page
Biobase-package	Man page
Compare,Versions,Versions-method	Man page
Compare,Versions,character-method	Man page
Compare,character,Versions-method	Man page
ExpressionSet	Man page
ExpressionSet,environment-method	Man page
ExpressionSet,matrix-method	Man page
ExpressionSet,missing-method	Man page
ExpressionSet-class	Man page
MIAME	Man page Source code
MIAME-class	Man page
MIAxE	Man page
MIAxE-class	Man page
MultiSet	Man page
MultiSet-class	Man page
NChannelSet	Man page
NChannelSet-class	Man page
SW	Man page
ScalarCharacter-class	Man page
ScalarInteger-class	Man page
ScalarLogical-class	Man page
ScalarNumeric-class	Man page
ScalarObject-class	Man page
SnpSet	Man page
SnpSet-class	Man page
Versioned	Man page
Versioned-class	Man page
VersionedBiobase	Man page
VersionedBiobase-class	Man page
Versions	Man page
Versions-class	Man page
VersionsNull	Man page
VersionsNull-class	Man page
[,AnnotatedDataFrame-method	Man page
[,Versions-method	Man page
[,container-method	Man page
[,eSet-method	Man page
[<-,Versions-method	Man page
[[,AnnotatedDataFrame-method	Man page
[[,container-method	Man page
[[,eSet-method	Man page
[[<-,AnnotatedDataFrame-method	Man page
[[<-,Versions-method	Man page
[[<-,container-method	Man page
[[<-,eSet-method	Man page
`assayDataElement<-`	Source code
aaMap	Man page
abstract	Man page
abstract,MIAME-method	Man page
abstract,eSet-method	Man page
addVigs2WinMenu	Man page Source code
aggenv	Man page
aggenv,aggregator-method	Man page
aggfun	Man page
aggfun,aggregator-method	Man page
aggregator	Man page
aggregator-class	Man page
annotatedDataFrameFrom	Man page
annotatedDataFrameFrom,AssayData-method	Man page
annotatedDataFrameFrom,NULL-method	Man page
annotatedDataFrameFrom,matrix-method	Man page
annotatedDataFrameFromAssayData	Source code
annotatedDataFrameFromMatrix	Source code
annotatedDataFrameFromNull	Source code
annotatedDataset	Man page
annotatedDataset-class	Man page
annotation,eSet-method	Man page
annotation<-,eSet,character-method	Man page
anyMissing	Man page Source code
as.data.frame.ExpressionSet	Man page Source code
assayData	Man page
assayData,AssayData-method	Man page
assayData,eSet-method	Man page
assayData<-	Man page
assayData<-,NChannelSet,environment-method	Man page
assayData<-,NChannelSet,list-method	Man page
assayData<-,eSet,AssayData-method	Man page
assayDataDim	Source code
assayDataDims	Source code
assayDataElement	Man page Source code
assayDataElement<-	Man page
assayDataElementNames	Man page Source code
assayDataElementReplace	Man page Source code
assayDataEnvLock	Source code
assayDataNew	Man page Source code
assayDataStorageMode	Source code
assayDataStorageModeReplace	Source code
assayDataSubsetElements	Source code
assayDataValidMembers	Man page Source code
biocReposList	Man page
cache	Man page Source code
channel	Man page
channel,NChannelSet,character-method	Man page
channelNames	Man page
channelNames,NChannelSet-method	Man page
channelNames<-	Man page
channelNames<-,NChannelSet,character-method	Man page
channelNames<-,NChannelSet,list-method	Man page
characterORMIAME-class	Man page
checkClass	Source code
class.NChannelSet	Man page
class:AnnotatedDataFrame	Man page
class:ExpressionSet	Man page
class:MIAME	Man page
class:MIAxE	Man page
class:MultiSet	Man page
class:SnpSet	Man page
class:aggregator	Man page
class:annotatedDataset	Man page
class:characterORMIAME	Man page
class:container	Man page
class:eSet	Man page
class:exprList	Man page
class:exprMatrix	Man page
class:exprSet	Man page
class:phenoData	Man page
classVersion	Man page
classVersion,ANY-method	Man page
classVersion,Versioned-method	Man page
classVersion,character-method	Man page
classVersion<-	Man page
classVersion<-,Versioned,Versions-method	Man page
coerce,AnnotatedDataFrame,data.frame-method	Man page
coerce,ExpressionSet,data.frame-method	Man page
coerce,Versions,character-method	Man page
coerce,data.frame,AnnotatedDataFrame-method	Man page
coerce,eSet,ExpressionSet-method	Man page
coerce,eSet,MultiSet-method	Man page
coerce,exprSet,ExpressionSet-method	Man page
coerce,phenoData,AnnotatedDataFrame-method	Man page
combine,AnnotatedDataFrame,AnnotatedDataFrame-method	Man page
combine,AssayData,AssayData-method	Man page
combine,MIAME,MIAME-method	Man page
combine,eSet,ANY-method	Man page
combine,eSet,eSet-method	Man page
container	Man page
container-class	Man page
content	Man page
content,container-method	Man page
contents	Man page
contents,environment-method	Man page
copyEnv	Man page Source code
copySubstitute	Man page Source code
createPackage	Man page Source code
data.frameOrNULL-class	Man page
data:aaMap	Man page
data:geneCov	Man page
data:geneCovariate	Man page
data:geneData	Man page
data:reporter	Man page
data:sample.ExpressionSet	Man page
data:sample.MultiSet	Man page
data:sample.eSet	Man page
data:sample.exprSet	Man page
data:sample.exprSet.1	Man page
data:seD	Man page
description	Man page
description,eSet-method	Man page
description<-	Man page
description<-,eSet,MIAME-method	Man page
df2pD	Man page
dim,AnnotatedDataFrame-method	Man page
dim,eSet-method	Man page
dimLabels	Man page
dimLabels,AnnotatedDataFrame-method	Man page
dimLabels<-	Man page
dimLabels<-,AnnotatedDataFrame,character-method	Man page
dimnames	Man page
dimnames,AnnotatedDataFrame-method	Man page
dimnames,eSet-method	Man page
dimnames<-	Man page
dimnames<-,AnnotatedDataFrame-method	Man page
dimnames<-,eSet-method	Man page
dims	Man page
dims,eSet-method	Man page
dumpPackTxt	Man page
eList	Man page
eList,eSet-method	Man page
eList<-	Man page
eList<-,eSet,AssayData-method	Man page
eSet	Man page
eSet-class	Man page
esApply	Man page
esApply,ExpressionSet-method	Man page
experimentData	Man page
experimentData,eSet-method	Man page
experimentData<-	Man page
experimentData<-,eSet,MIAME-method	Man page
expinfo	Man page
expinfo,MIAME-method	Man page
exprList	Man page
exprList-class	Man page
exprMatrix	Man page
exprMatrix-class	Man page
exprSet	Man page
exprSet-class	Man page
exprs	Man page
exprs,ExpressionSet-method	Man page
exprs,SnpSet-method	Man page
exprs,eSet-method	Man page
exprs<-	Man page
exprs<-,ExpressionSet,matrix-method	Man page
exprs<-,SnpSet,matrix-method	Man page
exprs<-,eSet,AssayData-method	Man page
fData	Man page
fData,eSet-method	Man page
fData<-	Man page
fData<-,eSet,data.frame-method	Man page
featureData	Man page
featureData,eSet-method	Man page
featureData<-	Man page
featureData<-,eSet,AnnotatedDataFrame-method	Man page
featureNames	Man page
featureNames,AnnotatedDataFrame-method	Man page
featureNames,AssayData-method	Man page
featureNames,eSet-method	Man page
featureNames<-	Man page
featureNames<-,AnnotatedDataFrame-method	Man page
featureNames<-,AssayData-method	Man page
featureNames<-,eSet-method	Man page
fvarLabels	Man page
fvarLabels,eSet-method	Man page
fvarLabels<-	Man page
fvarLabels<-,eSet-method	Man page
fvarMetadata	Man page
fvarMetadata,eSet-method	Man page
fvarMetadata<-	Man page
fvarMetadata<-,eSet,data.frame-method	Man page
geneCov	Man page
geneCovariate	Man page
geneData	Man page
geneNames	Man page
geneNames,ExpressionSet-method	Man page
geneNames<-	Man page
geneNames<-,ExpressionSet,character-method	Man page
getExpData	Man page
getExpData,eSet,character-method	Man page
getPkgVigs	Man page Source code
head.AnnotatedDataFrame	Man page Source code
hybridizations	Man page
hybridizations,MIAME-method	Man page
initfun	Man page
initfun,aggregator-method	Man page
initialize,AnnotatedDataFrame-method	Man page
initialize,ExpressionSet-method	Man page
initialize,MultiSet-method	Man page
initialize,NChannelSet-method	Man page
initialize,SnpSet-method	Man page
initialize,Versioned-method	Man page
initialize,Versions-method	Man page
initialize,VersionsNull-method	Man page
initialize,aggregator-method	Man page
initialize,annotatedDataset-method	Man page
initialize,eSet-method	Man page
initialize,exprSet-method	Man page
initialize,phenoData-method	Man page
isCurrent	Man page
isCurrent,ANY,ANY-method	Man page
isCurrent,MIAME,missing-method	Man page
isCurrent,Versioned,character-method	Man page
isCurrent,Versioned,missing-method	Man page
isUnique	Man page Source code
isValidVersion	Source code
isVersioned	Man page
isVersioned,ANY-method	Man page
isVersioned,Versioned-method	Man page
isVersioned,character-method	Man page
l2e	Man page Source code
lcPrefix	Man page Source code
lcPrefixC	Man page Source code
lcSuffix	Man page Source code
length,container-method	Man page
listLen	Man page Source code
listOrEnv	Man page
listOrEnv-class	Man page
locked	Man page
locked,container-method	Man page
makeDataPackage	Man page
makeDataPackage,ANY-method	Man page
makeDataPackage,ExpressionSet-method	Man page
matchpt	Man page Source code
mkScalar	Man page Source code
multiassign	Man page
ncol,AnnotatedDataFrame-method	Man page
ncol,eSet-method	Man page
normControls	Man page
normControls,MIAME-method	Man page
note	Man page Source code
notes	Man page
notes,MIAME-method	Man page
notes,eSet-method	Man page
notes<-	Man page
notes<-,MIAME,character-method	Man page
notes<-,MIAME,list-method	Man page
notes<-,eSet,ANY-method	Man page
openPDF	Man page Source code
openVignette	Man page Source code
otherInfo	Man page
otherInfo,MIAME-method	Man page
pD2Rd	Source code
pData	Man page
pData,AnnotatedDataFrame-method	Man page
pData,eSet-method	Man page
pData<-	Man page
pData<-,AnnotatedDataFrame,data.frame-method	Man page
pData<-,eSet,data.frame-method	Man page
package.version	Man page Source code
phenoData	Man page
phenoData,eSet-method	Man page
phenoData-class	Man page
phenoData<-	Man page
phenoData<-,eSet,AnnotatedDataFrame-method	Man page
preproc	Man page
preproc,MIAME-method	Man page
preproc,eSet-method	Man page
preproc<-	Man page
preproc<-,MIAME-method	Man page
preproc<-,eSet-method	Man page
protocolData	Man page
protocolData,eSet-method	Man page
protocolData<-	Man page
protocolData<-,eSet,AnnotatedDataFrame-method	Man page
protocolData<-,eSet,character-method	Man page
pubMedIds	Man page
pubMedIds,MIAME-method	Man page
pubMedIds,eSet-method	Man page
pubMedIds<-	Man page
pubMedIds<-,MIAME,ANY-method	Man page
pubMedIds<-,eSet,character-method	Man page
read.AnnotatedDataFrame	Man page Source code
read.MIAME	Man page Source code
read.exprSet	Man page
read.pD	Man page
read.phenoData	Man page
readExpressionSet	Man page Source code
reporter	Man page
reporterNames	Man page
reporterNames,eSet-method	Man page
reporterNames<-	Man page
reporterNames<-,eSet,character-method	Man page
reverseSplit	Man page Source code
rowMax	Man page Source code
rowMedians	Man page
rowMedians,ExpressionSet-method	Man page
rowMedians,matrix-method	Man page
rowMin	Man page Source code
rowQ	Man page
rowQ,ExpressionSet,numeric-method	Man page
rowQ,matrix,numeric-method	Man page
sample.ExpressionSet	Man page
sample.MultiSet	Man page
sample.eSet	Man page
sample.exprSet	Man page
sample.exprSet.1	Man page
sampleNames	Man page
sampleNames,AnnotatedDataFrame-method	Man page
sampleNames,AssayData-method	Man page
sampleNames,NChannelSet-method	Man page
sampleNames,eSet-method	Man page
sampleNames<-	Man page
sampleNames<-,AnnotatedDataFrame,ANY-method	Man page
sampleNames<-,AssayData,ANY-method	Man page
sampleNames<-,AssayData,list-method	Man page
sampleNames<-,NChannelSet,list-method	Man page
sampleNames<-,eSet,ANY-method	Man page
samples	Man page
samples,MIAME-method	Man page
se.exprs	Man page
se.exprs<-	Man page
seD	Man page
selectChannels	Man page
selectChannels,NChannelSet,character-method	Man page
selectSome	Man page Source code
show,AnnotatedDataFrame-method	Man page
show,MIAME-method	Man page
show,MIAxE-method	Man page
show,ScalarCharacter-method	Man page
show,ScalarObject-method	Man page
show,Versioned-method	Man page
show,Versions-method	Man page
show,VersionsNull-method	Man page
show,container-method	Man page
show,eSet-method	Man page
snpCall	Man page
snpCall,SnpSet-method	Man page
snpCall<-	Man page
snpCall<-,SnpSet,matrix-method	Man page
snpCallProbability	Man page
snpCallProbability,SnpSet-method	Man page
snpCallProbability<-	Man page
snpCallProbability<-,SnpSet,matrix-method	Man page
storageMode	Man page
storageMode,AssayData-method	Man page
storageMode,eSet-method	Man page Man page
storageMode<-	Man page
storageMode<-,AssayData,character-method	Man page
storageMode<-,eSet,character-method	Man page Man page
strbreak	Man page Source code
subListExtract	Man page Source code
tail.AnnotatedDataFrame	Man page Source code
testBioCConnection	Man page Source code
unsafeSetSlot	Source code
updateESetTo	Source code
updateObject,AnnotatedDataFrame-method	Man page
updateObject,ExpressionSet-method	Man page
updateObject,MIAME-method	Man page
updateObject,Versions-method	Man page
updateObject,eSet-method	Man page
updateObjectTo	Man page
updateObjectTo,ANY,ANY-method	Man page
updateObjectTo,eSet,eSet-method	Man page
updateOldESet	Man page Source code
updateOldMiame	Man page
userQuery	Man page Source code
validAnnotatedDataFrame	Source code
validMsg	Man page Source code
varLabels	Man page
varLabels,AnnotatedDataFrame-method	Man page
varLabels,eSet-method	Man page
varLabels<-	Man page
varLabels<-,AnnotatedDataFrame-method	Man page
varLabels<-,eSet-method	Man page
varMetadata	Man page
varMetadata,AnnotatedDataFrame-method	Man page
varMetadata,eSet-method	Man page
varMetadata<-	Man page
varMetadata<-,AnnotatedDataFrame,data.frame-method	Man page
varMetadata<-,eSet,data.frame-method	Man page
write.AnnotatedDataFrame	Man page Source code
write.exprs	Man page
write.exprs,ExpressionSet-method	Man page