AUPRC                   AUPRC measures
AUROC                   AUROC measures
Do.GPAV                 GPAV - High Level Function
Do.GPAV.holdout         GPAV holdout
Do.HTD                  HTD-DAG vanilla
Do.HTD.holdout          HTD-DAG holdout
Do.flat.scores.normalization
                        Flat scores normalization
Do.full.annotation.matrix
                        Do full annotation matrix
Do.heuristic.methods    Do Heuristic Methods
Do.heuristic.methods.holdout
                        Do Heuristic Methods holdout
FMM                     Compute F-measure Multilabel
GPAV                    Generalized Pool-Adjacent Violators
GPAV.over.examples      GPAV Over Examples
GPAV.parallel           GPAV Over Examples - Parallel Implementation
HEMDAG-package          HEMDAG: Hierarchical Ensemble Methods for
                        Directed Acyclic Graphs
HTD-DAG                 HTD-DAG
Heuristic-Methods       Obozinski Heuristic Methods
Multilabel.F.measure    Multilabel F-measure
PXR                     Precision-Recall Measure
TPR-DAG-cross-validation
                        TPR-DAG cross-validation experiments
TPR-DAG-holdout         TPR-DAG holdout experiments
TPR-DAG-variants        TPR-DAG Ensemble Variants
adj.upper.tri           Binary Upper Triangular Adjacency Matrix
ancestors               Build ancestors
build.consistent.graph
                        Build Consistent Graph
check.DAG.integrity     DAG checker
check.annotation.matrix.integrity
                        Annotation matrix checker
children                Build children
compute.flipped.graph   Flip Graph
constraints.matrix      Constraints Matrix
create.stratified.fold.df
                        DataFrame for Stratified Cross Validation
descendants             Build descendants
distances.from.leaves   Distances from leaves
do.edges.from.HPO.obo   Parse an HPO OBO file
do.subgraph             Build subgraph
do.submatrix            Build submatrix
do.unstratified.cv.data
                        Unstratified Cross Validation
example.datasets        Small real example datasets
find.best.f             Best hierarchical F-score
find.leaves             Leaves
full.annotation.matrix
                        Full annotation matrix
graph.levels            Build Graph Levels
hierarchical.checkers   Hierarchical constraints checker
lexicographical.topological.sort
                        Lexicographical Topological Sorting
normalize.max           Max normalization
parents                 Build parents
read.graph              Read a directed graph from a file
read.undirected.graph   Read an undirected graph from a file
root.node               Root node
scores.normalization    Scores Normalization Function
specific.annotation.list
                        Specific annotations list
specific.annotation.matrix
                        specific annotation matrix
stratified.cross.validation
                        Stratified Cross Validation
transitive.closure.annotations
                        Transitive closure of annotations
tupla.matrix            Tupla Matrix
weighted.adjacency.matrix
                        Weighted Adjacency Matrix
write.graph             Write a directed graph on file
