HEMDAG

Hierarchical Ensemble Methods for Directed Acyclic Graphs

An implementation of Hierarchical Ensemble Methods for DAGs: 'HTD-DAG' (Hierarchical Top Down) and 'TPR-DAG' (True Path Rule). 'HEMDAG' can be used to enhance the predictions of virtually any flat learning method, by taking into account the hierarchical nature of the classes of a bio-ontology. 'HEMDAG' is specifically designed for exploiting the hierarchical relationships of DAG-structured taxonomies, such as the Human Phenotype Ontology (HPO) or the Gene Ontology (GO), but it can be also safely applied to tree-structured taxonomies (as FunCat), since trees are DAGs. 'HEMDAG' scale nicely both in terms of the complexity of the taxonomy and in the cardinality of the examples. (Marco Notaro, Max Schubach, Peter N. Robinson and Giorgio Valentini, Prediction of Human Phenotype Ontology terms by means of Hierarchical Ensemble methods, BMC Bioinformatics 2017).

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Description file content

Package
HEMDAG
Title
Hierarchical Ensemble Methods for Directed Acyclic Graphs
Version
1.0.0
Author
Marco Notaro [aut, cre] and Giorgio Valentini [aut] (AnacletoLab, Dipartimento di Informatica, Universita' degli Studi di Milano)
Maintainer
Marco Notaro
Description
An implementation of Hierarchical Ensemble Methods for DAGs: 'HTD-DAG' (Hierarchical Top Down) and 'TPR-DAG' (True Path Rule). 'HEMDAG' can be used to enhance the predictions of virtually any flat learning method, by taking into account the hierarchical nature of the classes of a bio-ontology. 'HEMDAG' is specifically designed for exploiting the hierarchical relationships of DAG-structured taxonomies, such as the Human Phenotype Ontology (HPO) or the Gene Ontology (GO), but it can be also safely applied to tree-structured taxonomies (as FunCat), since trees are DAGs. 'HEMDAG' scale nicely both in terms of the complexity of the taxonomy and in the cardinality of the examples. (Marco Notaro, Max Schubach, Peter N. Robinson and Giorgio Valentini, Prediction of Human Phenotype Ontology terms by means of Hierarchical Ensemble methods, BMC Bioinformatics 2017).
Depends
R (>= 3.4.1)
License
GPL (>= 3)
Encoding
UTF-8
LazyData
true
Repository
CRAN
NeedsCompilation
no
Imports
graph, RBGL, PerfMeas, precrec, preprocessCore, methods
Suggests
Rgraphviz
RoxygenNote
6.0.1
Packaged
2017-08-11 19:25:58 UTC; marco
Date/Publication
2017-08-11 21:56:15 UTC

install.packages('HEMDAG')

1.0.0

9 days ago

Marco Notaro

GPL (>= 3)

Depends on

R (>= 3.4.1)

Imports

graph, RBGL, PerfMeas, precrec, preprocessCore, methods

Suggests

Rgraphviz

Discussions