HEMDAG-package	HEMDAG-package
adj.upper.tri	adj.upper.tri
ancestors	ancestors
AUPRC	AUPRC
AUPRC.single.class	AUPRC
AUPRC.single.over.classes	AUPRC
AUROC	AUROC
AUROC.single.class	AUROC
AUROC.single.over.classes	AUROC
build.ancestors	ancestors
build.ancestors.bottom.up	ancestors
build.ancestors.per.level	ancestors
build.children	children
build.consistent.graph	build.consistent.graph
build.descendants	descendants
build.descendants.bottom.up	descendants
build.descendants.per.level	descendants
check.annotation.matrix.integrity	check.annotation.matrix.integrity
check.DAG.integrity	check.DAG.integrity
check.hierarchy	hierarchical.checkers
check.hierarchy.single.sample	hierarchical.checkers
children	children
compute.flipped.graph	compute.flipped.graph
compute.Fmeasure.multilabel	FMM
constraints.matrix	constraints.matrix
create.stratified.fold.df	create.stratified.fold.df
descendants	descendants
distances.from.leaves	distances.from.leaves
do.edges.from.HPO.obo	do.edges.from.HPO.obo
Do.flat.scores.normalization	Do.flat.scores.normalization
Do.full.annotation.matrix	Do.full.annotation.matrix
Do.GPAV	Do.GPAV
Do.GPAV.holdout	Do.GPAV.holdout
Do.heuristic.methods	Do.heuristic.methods
Do.heuristic.methods.holdout	Do.heuristic.methods.holdout
Do.HTD	Do.HTD
Do.HTD.holdout	Do.HTD.holdout
do.stratified.cv.data.over.classes	stratified.cross.validation
do.stratified.cv.data.single.class	stratified.cross.validation
do.subgraph	do.subgraph
do.submatrix	do.submatrix
Do.TPR.DAG	TPR-DAG-cross-validation
Do.TPR.DAG.holdout	TPR-DAG-holdout
do.unstratified.cv.data	do.unstratified.cv.data
example.datasets	example.datasets
F.measure.multilabel	Multilabel.F.measure
F.measure.multilabel,matrix,matrix-method	Multilabel.F.measure
find.best.f	find.best.f
find.leaves	find.leaves
FMM	FMM
full.annotation.matrix	full.annotation.matrix
g	example.datasets
get.children.bottom.up	children
get.children.top.down	children
get.parents	parents
get.parents.bottom.up	parents
get.parents.top.down	parents
get.parents.topological.sorting	parents
GPAV	GPAV
GPAV.over.examples	GPAV.over.examples
GPAV.parallel	GPAV.parallel
graph.levels	graph.levels
HEMDAG	HEMDAG-package
Heuristic-Methods	Heuristic-Methods
heuristic.and	Heuristic-Methods
heuristic.max	Heuristic-Methods
heuristic.or	Heuristic-Methods
hierarchical.checkers	hierarchical.checkers
htd	HTD-DAG
HTD-DAG	HTD-DAG
L	example.datasets
lexicographical.topological.sort	lexicographical.topological.sort
Multilabel.F.measure	Multilabel.F.measure
normalize.max	normalize.max
parents	parents
precision.at.all.recall.levels.single.class	PXR
precision.at.given.recall.levels.over.classes	PXR
PXR	PXR
read.graph	read.graph
read.undirected.graph	read.undirected.graph
root.node	root.node
S	example.datasets
scores.normalization	scores.normalization
specific.annotation.list	specific.annotation.list
specific.annotation.matrix	specific.annotation.matrix
stratified.cross.validation	stratified.cross.validation
test.index	example.datasets
TPR-DAG-cross-validation	TPR-DAG-cross-validation
TPR-DAG-holdout	TPR-DAG-holdout
TPR-DAG-variants	TPR-DAG-variants
TPR.DAG	TPR-DAG-variants
transitive.closure.annotations	transitive.closure.annotations
tupla.matrix	tupla.matrix
W	example.datasets
weighted.adjacency.matrix	weighted.adjacency.matrix
write.graph	write.graph
