$,LinearEmbeddingMatrix-method	LEM-getset
$<-,LinearEmbeddingMatrix-method	LEM-getset
%	altExps
altExp	altExps
altExp,SingleCellExperiment,character-method	altExps
altExp,SingleCellExperiment,missing-method	altExps
altExp,SingleCellExperiment,numeric-method	altExps
altExp<-	altExps
altExp<-,SingleCellExperiment,character-method	altExps
altExp<-,SingleCellExperiment,missing-method	altExps
altExp<-,SingleCellExperiment,numeric-method	altExps
altExpNames	altExps
altExpNames,SingleCellExperiment-method	altExps
altExpNames<-	altExps
altExpNames<-,SingleCellExperiment,character-method	altExps
altExps	altExps
altExps,SingleCellExperiment-method	altExps
altExps<-	altExps
altExps<-,SingleCellExperiment-method	altExps
applySCE	applySCE
as.matrix,LinearEmbeddingMatrix-method	LEM-getset
c,DualSubset-method	rowPairs
c,SummarizedExperimentByColumn-method	altExps
cbind,LinearEmbeddingMatrix-method	LEM-combine
cbind,SingleCellExperiment-method	combine
cbind.reduced.dim.matrix	reduced.dim.matrix
check	altExps
clearSizeFactors	defunct
clearSpikes	defunct
coerce,RangedSummarizedExperiment,SingleCellExperiment-method	SingleCellExperiment
coerce,SummarizedExperiment,SingleCellExperiment-method	SingleCellExperiment
colData,SingleCellExperiment-method	internals
colLabels	colLabels
colLabels,SingleCellExperiment-method	colLabels
colLabels<-	colLabels
colLabels<-,SingleCellExperiment-method	colLabels
colPair	colPairs
colPair,SingleCellExperiment,character-method	colPairs
colPair,SingleCellExperiment,missing-method	colPairs
colPair,SingleCellExperiment,numeric-method	colPairs
colPair<-	colPairs
colPair<-,SingleCellExperiment,character-method	colPairs
colPair<-,SingleCellExperiment,missing-method	colPairs
colPair<-,SingleCellExperiment,numeric-method	colPairs
colPairNames	colPairs
colPairNames,SingleCellExperiment-method	colPairs
colPairNames<-	colPairs
colPairNames<-,SingleCellExperiment,character-method	colPairs
colPairs	colPairs
colPairs,SingleCellExperiment-method	colPairs
colPairs<-	colPairs
colPairs<-,SingleCellExperiment-method	colPairs
combineCols,SingleCellExperiment-method	combine
complain.	altExps
counts	assays
counts,SingleCellExperiment-method	assays
counts<-	assays
counts<-,SingleCellExperiment-method	assays
cpm	assays
cpm,SingleCellExperiment-method	assays
cpm<-	assays
cpm<-,SingleCellExperiment-method	assays
defunct	defunct
dim,LinearEmbeddingMatrix-method	LEM-getset
dimnames,LinearEmbeddingMatrix-method	LEM-getset
dimnames<-,LinearEmbeddingMatrix,ANY-method	LEM-getset
dimnames<-,LinearEmbeddingMatrix-method	LEM-getset
doesn't	altExps
Dumping	altExps
factorData	LEM-getset
factorData,LinearEmbeddingMatrix-method	LEM-getset
factorData<-	LEM-getset
factorData<-,LinearEmbeddingMatrix-method	LEM-getset
featureLoadings	LEM-getset
featureLoadings,LinearEmbeddingMatrix-method	LEM-getset
featureLoadings<-	LEM-getset
featureLoadings<-,LinearEmbeddingMatrix-method	LEM-getset
here,	altExps
int_colData	internals
int_colData,SingleCellExperiment-method	internals
int_colData<-	internals
int_colData<-,SingleCellExperiment-method	internals
int_elementMetadata	internals
int_elementMetadata,SingleCellExperiment-method	internals
int_elementMetadata<-	internals
int_elementMetadata<-,SingleCellExperiment-method	internals
int_metadata	internals
int_metadata,SingleCellExperiment-method	internals
int_metadata<-	internals
int_metadata<-,SingleCellExperiment-method	internals
isSpike	defunct
isSpike<-	defunct
length,DualSubset-method	rowPairs
length,SummarizedExperimentByColumn-method	altExps
LinearEmbeddingMatrix	LinearEmbeddingMatrix
LinearEmbeddingMatrix-class	LinearEmbeddingMatrix
logcounts	assays
logcounts,SingleCellExperiment-method	assays
logcounts<-	assays
logcounts<-,SingleCellExperiment-method	assays
mainExpName	altExps
mainExpName,SingleCellExperiment-method	altExps
mainExpName<-	altExps
mainExpName<-,SingleCellExperiment,character_OR_NULL-method	altExps
methods	altExps
names,SummarizedExperimentByColumn-method	altExps
names<-,SummarizedExperimentByColumn-method	altExps
normcounts	assays
normcounts,SingleCellExperiment-method	assays
normcounts<-	assays
normcounts<-,SingleCellExperiment-method	assays
objectVersion	miscellaneous
objectVersion,SingleCellExperiment-method	miscellaneous
parallel_slot_names,SingleCellExperiment-method	internals
rbind,LinearEmbeddingMatrix-method	LEM-combine
rbind,SingleCellExperiment-method	combine
rbind.reduced.dim.matrix	reduced.dim.matrix
reduced.dim.matrix	reduced.dim.matrix
reduced.dim.matrix-class	reduced.dim.matrix
reducedDim	reducedDims
reducedDim,SingleCellExperiment,character-method	reducedDims
reducedDim,SingleCellExperiment,missing-method	reducedDims
reducedDim,SingleCellExperiment,numeric-method	reducedDims
reducedDim<-	reducedDims
reducedDim<-,SingleCellExperiment,character-method	reducedDims
reducedDim<-,SingleCellExperiment,missing-method	reducedDims
reducedDim<-,SingleCellExperiment,numeric-method	reducedDims
reducedDimNames	reducedDims
reducedDimNames,SingleCellExperiment-method	reducedDims
reducedDimNames<-	reducedDims
reducedDimNames<-,SingleCellExperiment,character-method	reducedDims
reducedDims	reducedDims
reducedDims,SingleCellExperiment-method	reducedDims
reducedDims<-	reducedDims
reducedDims<-,SingleCellExperiment-method	reducedDims
removeAltExps	altExps
rowData,SingleCellExperiment-method	internals
rowPair	rowPairs
rowPair,SingleCellExperiment,character-method	rowPairs
rowPair,SingleCellExperiment,missing-method	rowPairs
rowPair,SingleCellExperiment,numeric-method	rowPairs
rowPair<-	rowPairs
rowPair<-,SingleCellExperiment,character-method	rowPairs
rowPair<-,SingleCellExperiment,missing-method	rowPairs
rowPair<-,SingleCellExperiment,numeric-method	rowPairs
rowPairNames	rowPairs
rowPairNames,SingleCellExperiment-method	rowPairs
rowPairNames<-	rowPairs
rowPairNames<-,SingleCellExperiment,character-method	rowPairs
rowPairs	rowPairs
rowPairs,SingleCellExperiment-method	rowPairs
rowPairs<-	rowPairs
rowPairs<-,SingleCellExperiment-method	rowPairs
rowSubset	rowSubset
rowSubset,SingleCellExperiment-method	rowSubset
rowSubset<-	rowSubset
rowSubset<-,SingleCellExperiment-method	rowSubset
sampleFactors	LEM-getset
sampleFactors,LinearEmbeddingMatrix-method	LEM-getset
sampleFactors<-	LEM-getset
sampleFactors<-,LinearEmbeddingMatrix-method	LEM-getset
SCE-assays	assays
SCE-combine	combine
SCE-internals	internals
SCE-miscellaneous	miscellaneous
SEBC	altExps
show,LinearEmbeddingMatrix-method	LEM-misc
show,SingleCellExperiment-method	miscellaneous
simplifyToSCE	simplifyToSCE
SingleCellExperiment	SingleCellExperiment
SingleCellExperiment-class	SingleCellExperiment
sizeFactorNames	defunct
sizeFactors	sizeFactors
sizeFactors,SingleCellExperiment-method	sizeFactors
sizeFactors<-,SingleCellExperiment-method	sizeFactors
so	altExps
spikeNames	defunct
splitAltExps	splitAltExps
swapAltExp	swapAltExp
that	altExps
the	altExps
tpm	assays
tpm,SingleCellExperiment-method	assays
tpm<-	assays
tpm<-,SingleCellExperiment-method	assays
unsplitAltExps	unsplitAltExps
updateObject	updateObject
updateObject,SingleCellExperiment-method	updateObject
weights	assays
weights,SingleCellExperiment-method	assays
weights<-	assays
weights<-,SingleCellExperiment-method	assays
[,DualSubset,ANY,ANY,ANY-method	rowPairs
[,LinearEmbeddingMatrix,ANY,ANY,ANY-method	LEM-subset
[,LinearEmbeddingMatrix,ANY,ANY-method	LEM-subset
[,LinearEmbeddingMatrix,ANY-method	LEM-subset
[,SingleCellExperiment,ANY,ANY,ANY-method	combine
[,SingleCellExperiment,ANY,ANY-method	combine
[,SingleCellExperiment,ANY-method	combine
[,SummarizedExperimentByColumn,ANY,ANY,ANY-method	altExps
[.reduced.dim.matrix	reduced.dim.matrix
[<-,DualSubset,ANY,ANY,ANY-method	rowPairs
[<-,LinearEmbeddingMatrix,ANY,ANY,LinearEmbeddingMatrix-method	LEM-subset
[<-,SingleCellExperiment,ANY,ANY,SingleCellExperiment-method	combine
[<-,SummarizedExperimentByColumn,ANY,ANY,ANY-method	altExps
