AUPRC.single.class      AUPRC single class
AUPRC.single.over.classes
                        AUPRC over classes
AUROC.single.class      AUROC single class
AUROC.single.over.classes
                        AUROC over classes
DESCENS                 DESCENS variants
Do.FLAT.scores.normalization
                        Flat scores normalization
Do.HTD                  HTD-DAG vanilla
Do.HTD.holdout          HTD-DAG holdout
Do.full.annotation.matrix
                        Do full annotations matrix
Do.heuristic.methods    Do Heuristic Methods
Do.heuristic.methods.holdout
                        Do Heuristic Methods holdout
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
TPR-DAG                 TPR-DAG variants
TPR-DAG-cross-validation
                        TPR-DAG cross-validation experiments
TPR-DAG-holdout         TPR-DAG holdout experiments
TPR-DAG-variants        TPR-DAG Variants
ancestors               Build ancestors
check.DAG.integrity     DAG checker
check.annotation.matrix.integrity
                        Annotation matrix checker
children                Build children
compute.flipped.graph   Flip Graph
constraints.matrix      Constraints Matrix
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 annotations matrix
graph.levels            Build Graph Levels
hierarchical.checkers   Hierarchical constraints cheker
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
specific.annotation.list
                        Specific annotations list
specific.annotation.matrix
                        HPO specific annotations 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
