apcluster-package	apcluster-package
aggExCluster	aggExCluster-methods
aggexcluster	aggExCluster-methods
aggExCluster,character,ANY-method	aggExCluster-methods
aggExCluster,function,ANY-method	aggExCluster-methods
aggExCluster,Matrix,ExClust-method	aggExCluster-methods
aggExCluster,matrix,ExClust-method	aggExCluster-methods
aggExCluster,Matrix,missing-method	aggExCluster-methods
aggExCluster,matrix,missing-method	aggExCluster-methods
aggExCluster,missing,ExClust-method	aggExCluster-methods
aggExCluster-methods	aggExCluster-methods
AggExResult	AggExResult-class
aggexresult	AggExResult-class
AggExResult-class	AggExResult-class
apcluster	apcluster-methods
apcluster,character,ANY-method	apcluster-methods
apcluster,dgTMatrix,missing-method	apcluster-methods
apcluster,function,ANY-method	apcluster-methods
apcluster,Matrix,missing-method	apcluster-methods
apcluster,matrix,missing-method	apcluster-methods
apcluster,sparseMatrix,missing-method	apcluster-methods
apcluster-deprecated	apcluster-deprecated
apcluster-methods	apcluster-methods
apclusterDemo	apclusterDemo
apclusterK	apclusterK-methods
apclusterK,character,ANY-method	apclusterK-methods
apclusterK,dgTMatrix,missing-method	apclusterK-methods
apclusterK,function,ANY-method	apclusterK-methods
apclusterK,Matrix,missing-method	apclusterK-methods
apclusterK,matrix,missing-method	apclusterK-methods
apclusterK,sparseMatrix,missing-method	apclusterK-methods
apclusterK-methods	apclusterK-methods
apclusterL	apclusterL-methods
apclusterL,character,ANY-method	apclusterL-methods
apclusterL,function,ANY-method	apclusterL-methods
apclusterL,matrix,missing-method	apclusterL-methods
apclusterL-methods	apclusterL-methods
APResult	APResult-class
apresult	APResult-class
APResult-class	APResult-class
as.dendrogram	coerce-methods
as.dendrogram,AggExResult-method	coerce-methods
as.dendrogram,ExClust-method	coerce-methods
as.DenseSimilarityMatrix	conversions
as.DenseSimilarityMatrix,Matrix-method	conversions
as.DenseSimilarityMatrix,matrix-method	conversions
as.DenseSimilarityMatrix,sparseMatrix-method	conversions
as.DenseSimilarityMatrix-method	conversions
as.hclust	coerce-methods
as.hclust,AggExResult-method	coerce-methods
as.hclust,ExClust-method	coerce-methods
as.SparseSimilarityMatrix	conversions
as.SparseSimilarityMatrix,Matrix-method	conversions
as.SparseSimilarityMatrix,matrix-method	conversions
as.SparseSimilarityMatrix,sparseMatrix-method	conversions
as.SparseSimilarityMatrix-methods	conversions
ch22Promoters	ch22Promoters
conversions	conversions
corSimMat	similarities
cutree	cutree-methods
cutree,AggExResult-method	cutree-methods
cutree,APResult-method	cutree-methods
cutree-methods	cutree-methods
ExClust	ExClust-class
exclust	ExClust-class
ExClust-class	ExClust-class
expSimMat	similarities
heatmap	heatmap-methods
heatmap,AggExResult,matrix-method	heatmap-methods
heatmap,AggExResult,missing-method	heatmap-methods
heatmap,ExClust,Matrix-method	heatmap-methods
heatmap,ExClust,matrix-method	heatmap-methods
heatmap,ExClust,missing-method	heatmap-methods
heatmap,ExClust,sparseMatrix-method	heatmap-methods
heatmap,matrix,missing-method	heatmap-methods
heatmap,missing,matrix-method	heatmap-methods
heatmap-methods	heatmap-methods
labels	labels-methods
labels,APResult-method	labels-methods
labels,ExClust-method	labels-methods
labels-methods	labels-methods
length,AggExResult-method	AggExResult-class
length,APResult-method	APResult-class
length,ExClust-method	ExClust-class
linKernel	similarities
linSimMat	similarities
negDistMat	similarities
plot	plot-methods
plot,AggExResult,data.frame-method	plot-methods
plot,AggExResult,matrix-method	plot-methods
plot,AggExResult,missing-method	plot-methods
plot,APResult,missing-method	plot-methods
plot,ExClust,data.frame-method	plot-methods
plot,ExClust,matrix-method	plot-methods
plot,ExClust,missing-method	plot-methods
plot-methods	plot-methods
preferenceRange	preferenceRange-methods
preferenceRange,dgTMatrix-method	preferenceRange-methods
preferenceRange,Matrix-method	preferenceRange-methods
preferenceRange,matrix-method	preferenceRange-methods
preferenceRange,sparseMatrix-method	preferenceRange-methods
preferenceRange-methods	preferenceRange-methods
show	show-methods
show,AggExResult-method	show-methods
show,APResult-method	show-methods
show,ExClust-method	show-methods
show-methods	show-methods
similarities	similarities
similarity	APResult-class
similarity,AggExResult-method	AggExResult-class
similarity,APResult-method	APResult-class
similarity,ExClust-method	ExClust-class
sort	sort-methods
sort,APResult-method	sort-methods
sort,ExClust-method	sort-methods
sort-methods	sort-methods
sparseToFull	apcluster-deprecated
[,AggExResult,index,missing,missing-method	AggExResult-class
[,APResult,index,missing,missing-method	APResult-class
[,ExClust,index,missing,missing-method	ExClust-class
[[,AggExResult,index,missing-method	AggExResult-class
[[,APResult,index,missing-method	APResult-class
[[,ExClust,index,missing-method	ExClust-class
