adj.upper.tri | Binary Upper Triangular Adjacency Matrix |
ancestors | Build ancestors |
AUPRC | AUPRC measures |
AUROC | AUROC measures |
build.consistent.graph | Build Consistent Graph |
check.annotation.matrix.integrity | Annotation matrix checker |
check.DAG.integrity | DAG 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.flat.scores.normalization | Flat scores normalization |
Do.full.annotation.matrix | Do full annotation matrix |
Do.GPAV | GPAV - High Level Function |
Do.GPAV.holdout | GPAV holdout |
Do.heuristic.methods | Do Heuristic Methods |
Do.heuristic.methods.holdout | Do Heuristic Methods holdout |
Do.HTD | HTD-DAG vanilla |
Do.HTD.holdout | HTD-DAG holdout |
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 |
FMM | Compute F-measure Multilabel |
full.annotation.matrix | Full annotation matrix |
GPAV | Generalized Pool-Adjacent Violators |
GPAV.over.examples | GPAV Over Examples |
GPAV.parallel | GPAV Over Examples - Parallel Implementation |
graph.levels | Build Graph Levels |
HEMDAG-package | HEMDAG: Hierarchical Ensemble Methods for Directed Acyclic... |
Heuristic-Methods | Obozinski Heuristic Methods |
hierarchical.checkers | Hierarchical constraints checker |
HTD-DAG | HTD-DAG |
lexicographical.topological.sort | Lexicographical Topological Sorting |
Multilabel.F.measure | Multilabel F-measure |
normalize.max | Max normalization |
parents | Build parents |
PXR | Precision-Recall Measure |
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 |
TPR-DAG-cross-validation | TPR-DAG cross-validation experiments |
TPR-DAG-holdout | TPR-DAG holdout experiments |
TPR-DAG-variants | TPR-DAG Ensemble Variants |
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 |
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