Package: HEMDAG
Title: Hierarchical Ensemble Methods for Directed Acyclic Graphs
Version: 2.7.4
Author: Marco Notaro [aut, cre] (<https://orcid.org/0000-0003-4309-2200>),
  Alessandro Petrini [ctb] (<https://orcid.org/0000-0002-0587-1484>),
  Giorgio Valentini [aut] (<https://orcid.org/0000-0002-5694-3919>)
Maintainer: Marco Notaro <marco.notaro@unimi.it>
Description: An implementation of several Hierarchical Ensemble Methods (HEMs) for Directed Acyclic Graphs (DAGs). 'HEMDAG' package: 1) reconciles flat predictions with the topology of the ontology; 2) can enhance the predictions of virtually any flat learning methods by taking into account the hierarchical relationships between ontology classes; 3) provides biologically meaningful predictions that always obey the true-path-rule, the biological and logical rule that governs the internal coherence of biomedical ontologies; 4) 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 can be safely applied to tree-structured taxonomies as well (as FunCat), since trees are DAGs; 5) scales nicely both in terms of the complexity of the taxonomy and in the cardinality of the examples; 6) provides several utility functions to process and analyze graphs; 7) provides several performance metrics to evaluate HEMs algorithms. (Marco Notaro, Max Schubach, Peter N. Robinson and Giorgio Valentini (2017) <doi:10.1186/s12859-017-1854-y>).
URL: https://hemdag.readthedocs.io
        https://github.com/marconotaro/hemdag
        https://anaconda.org/bioconda/r-hemdag
BugReports: https://github.com/marconotaro/hemdag/issues
Depends: R (>= 2.10)
License: GPL (>= 3)
Encoding: UTF-8
Repository: CRAN
LazyLoad: true
NeedsCompilation: yes
Imports: graph, RBGL, precrec, preprocessCore, methods, plyr, foreach,
        doParallel, parallel
Suggests: Rgraphviz, testthat
Authors@R: c( person(given="Marco", family="Notaro", role=c("aut", "cre"), comment=c(ORCID="0000-0003-4309-2200"), email="marco.notaro@unimi.it"),
              person(given="Alessandro", family="Petrini", role="ctb", comment=c(ORCID="0000-0002-0587-1484")),
              person(given="Giorgio", family="Valentini", role="aut", comment=c(ORCID="0000-0002-5694-3919")))
RoxygenNote: 7.1.1
Packaged: 2021-02-12 14:19:11 UTC; marco
Date/Publication: 2021-02-12 15:00:06 UTC
Built: R 4.3.3; x86_64-w64-mingw32; 2025-04-07 02:24:51 UTC; windows
Archs: x64
