API for SingleCellExperiment
S4 Classes for Single Cell Data

Global functions
$,LinearEmbeddingMatrix-method	Man page
$<-,LinearEmbeddingMatrix-method	Man page
%	Man page
.absent_action	Source code
.any2dualsubset	Source code Source code
.convert_subset_index	Source code
.create_shell_coldata	Source code
.create_shell_rowdata	Source code
.get_hits	Source code
.get_internal_all	Source code
.get_internal_character	Source code
.get_internal_integer	Source code
.get_internal_missing	Source code
.get_internal_names	Source code
.get_se	Source code
.hits2mat	Source code
.le_show	Source code
.le_validity	Source code
.mat2hits	Source code
.rse_to_sce	Source code
.sce_show	Source code
.sce_validity	Source code
.set_internal_all	Source code
.set_internal_character	Source code
.set_internal_missing	Source code
.set_internal_names	Source code
.set_internal_numeric	Source code
DualSubset	Source code
Dumping	Man page
GET_FUN	Source code
LinearEmbeddingMatrix	Man page Source code
LinearEmbeddingMatrix-class	Man page
SCE-assays	Man page
SCE-combine	Man page
SCE-internals	Man page
SCE-miscellaneous	Man page
SEBC	Man page
SET_FUN	Source code
SingleCellExperiment	Man page Source code
SingleCellExperiment-class	Man page
SummarizedExperimentByColumn	Source code
[,DualSubset,ANY,ANY,ANY-method	Man page
[,LinearEmbeddingMatrix,ANY,ANY,ANY-method	Man page
[,LinearEmbeddingMatrix,ANY,ANY-method	Man page
[,LinearEmbeddingMatrix,ANY-method	Man page
[,SingleCellExperiment,ANY,ANY,ANY-method	Man page
[,SingleCellExperiment,ANY,ANY-method	Man page
[,SingleCellExperiment,ANY-method	Man page
[,SummarizedExperimentByColumn,ANY,ANY,ANY-method	Man page
[<-,DualSubset,ANY,ANY,ANY-method	Man page
[<-,LinearEmbeddingMatrix,ANY,ANY,LinearEmbeddingMatrix-method	Man page
[<-,SingleCellExperiment,ANY,ANY,SingleCellExperiment-method	Man page
[<-,SummarizedExperimentByColumn,ANY,ANY,ANY-method	Man page
altExp	Man page
altExp,SingleCellExperiment,character-method	Man page
altExp,SingleCellExperiment,missing-method	Man page
altExp,SingleCellExperiment,numeric-method	Man page
altExp<-	Man page
altExp<-,SingleCellExperiment,character-method	Man page
altExp<-,SingleCellExperiment,missing-method	Man page
altExp<-,SingleCellExperiment,numeric-method	Man page
altExpNames	Man page
altExpNames,SingleCellExperiment-method	Man page
altExpNames<-	Man page
altExpNames<-,SingleCellExperiment,character-method	Man page
altExps	Man page
altExps,SingleCellExperiment-method	Man page
altExps<-	Man page
altExps<-,SingleCellExperiment-method	Man page
as.matrix,LinearEmbeddingMatrix-method	Man page
as.matrix.LinearEmbeddingMatrix	Source code
c,DualSubset-method	Man page
c,SummarizedExperimentByColumn-method	Man page
cbind,LinearEmbeddingMatrix-method	Man page
cbind,SingleCellExperiment-method	Man page
check	Man page
clearSizeFactors	Man page
clearSpikes	Man page
coerce,RangedSummarizedExperiment,SingleCellExperiment-method	Man page
coerce,SummarizedExperiment,SingleCellExperiment-method	Man page
colData,SingleCellExperiment-method	Man page
colLabels	Man page
colLabels,SingleCellExperiment-method	Man page
colLabels<-	Man page
colLabels<-,SingleCellExperiment-method	Man page
colPair	Man page
colPair,SingleCellExperiment,character-method	Man page
colPair,SingleCellExperiment,missing-method	Man page
colPair,SingleCellExperiment,numeric-method	Man page
colPair<-	Man page
colPair<-,SingleCellExperiment,character-method	Man page
colPair<-,SingleCellExperiment,missing-method	Man page
colPair<-,SingleCellExperiment,numeric-method	Man page
colPairNames	Man page
colPairNames,SingleCellExperiment-method	Man page
colPairNames<-	Man page
colPairNames<-,SingleCellExperiment,character-method	Man page
colPairs	Man page
colPairs,SingleCellExperiment-method	Man page
colPairs<-	Man page
colPairs<-,SingleCellExperiment-method	Man page
complain.	Man page
counts	Man page
counts,SingleCellExperiment-method	Man page
counts<-	Man page
counts<-,SingleCellExperiment-method	Man page
cpm	Man page
cpm,SingleCellExperiment-method	Man page
cpm<-	Man page
cpm<-,SingleCellExperiment-method	Man page
defunct	Man page
dim,LinearEmbeddingMatrix-method	Man page
dimnames,LinearEmbeddingMatrix-method	Man page
dimnames<-,LinearEmbeddingMatrix,ANY-method	Man page
dimnames<-,LinearEmbeddingMatrix-method	Man page
doesn't	Man page
factorData	Man page
factorData,LinearEmbeddingMatrix-method	Man page
factorData<-	Man page
factorData<-,LinearEmbeddingMatrix-method	Man page
featureLoadings	Man page
featureLoadings,LinearEmbeddingMatrix-method	Man page
featureLoadings<-	Man page
featureLoadings<-,LinearEmbeddingMatrix-method	Man page
here,	Man page
int_colData	Man page
int_colData,SingleCellExperiment-method	Man page
int_colData<-	Man page
int_colData<-,SingleCellExperiment-method	Man page
int_elementMetadata	Man page
int_elementMetadata,SingleCellExperiment-method	Man page
int_elementMetadata<-	Man page
int_elementMetadata<-,SingleCellExperiment-method	Man page
int_metadata	Man page
int_metadata,SingleCellExperiment-method	Man page
int_metadata<-	Man page
int_metadata<-,SingleCellExperiment-method	Man page
isSpike	Man page
isSpike<-	Man page
length,DualSubset-method	Man page
length,SummarizedExperimentByColumn-method	Man page
logcounts	Man page
logcounts,SingleCellExperiment-method	Man page
logcounts<-	Man page
logcounts<-,SingleCellExperiment-method	Man page
methods	Man page
names,SummarizedExperimentByColumn-method	Man page
names<-,SummarizedExperimentByColumn-method	Man page
normcounts	Man page
normcounts,SingleCellExperiment-method	Man page
normcounts<-	Man page
normcounts<-,SingleCellExperiment-method	Man page
objectVersion	Man page
objectVersion,SingleCellExperiment-method	Man page
parallel_slot_names,SingleCellExperiment-method	Man page
rbind,LinearEmbeddingMatrix-method	Man page
rbind,SingleCellExperiment-method	Man page
reducedDim	Man page
reducedDim,SingleCellExperiment,character-method	Man page
reducedDim,SingleCellExperiment,missing-method	Man page
reducedDim,SingleCellExperiment,numeric-method	Man page
reducedDim<-	Man page
reducedDim<-,SingleCellExperiment,character-method	Man page
reducedDim<-,SingleCellExperiment,missing-method	Man page
reducedDim<-,SingleCellExperiment,numeric-method	Man page
reducedDimNames	Man page
reducedDimNames,SingleCellExperiment-method	Man page
reducedDimNames<-	Man page
reducedDimNames<-,SingleCellExperiment,character-method	Man page
reducedDims	Man page
reducedDims,SingleCellExperiment-method	Man page
reducedDims<-	Man page
reducedDims<-,SingleCellExperiment-method	Man page
removeAltExps	Man page Source code
rowData,SingleCellExperiment-method	Man page
rowPair	Man page
rowPair,SingleCellExperiment,character-method	Man page
rowPair,SingleCellExperiment,missing-method	Man page
rowPair,SingleCellExperiment,numeric-method	Man page
rowPair<-	Man page
rowPair<-,SingleCellExperiment,character-method	Man page
rowPair<-,SingleCellExperiment,missing-method	Man page
rowPair<-,SingleCellExperiment,numeric-method	Man page
rowPairNames	Man page
rowPairNames,SingleCellExperiment-method	Man page
rowPairNames<-	Man page
rowPairNames<-,SingleCellExperiment,character-method	Man page
rowPairs	Man page
rowPairs,SingleCellExperiment-method	Man page
rowPairs<-	Man page
rowPairs<-,SingleCellExperiment-method	Man page
rowSubset	Man page
rowSubset,SingleCellExperiment-method	Man page
rowSubset<-	Man page
rowSubset<-,SingleCellExperiment-method	Man page
sampleFactors	Man page
sampleFactors,LinearEmbeddingMatrix-method	Man page
sampleFactors<-	Man page
sampleFactors<-,LinearEmbeddingMatrix-method	Man page
show,LinearEmbeddingMatrix-method	Man page
show,SingleCellExperiment-method	Man page
sizeFactorNames	Man page
sizeFactors	Man page
sizeFactors,SingleCellExperiment-method	Man page
sizeFactors<-,SingleCellExperiment-method	Man page
so	Man page
spikeNames	Man page
splitAltExps	Man page Source code
swapAltExp	Man page Source code
that	Man page
the	Man page
tpm	Man page
tpm,SingleCellExperiment-method	Man page
tpm<-	Man page
tpm<-,SingleCellExperiment-method	Man page
updateObject	Man page
updateObject,SingleCellExperiment-method	Man page
weights	Man page
weights,SingleCellExperiment-method	Man page
weights<-	Man page
weights<-,SingleCellExperiment-method	Man page