Hierarchical Ensemble Methods for Directed Acyclic Graphs

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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