dcGOR (version 1.0.0)

obo.HPPA: Human Phenotype Phenotypic Abnormality (HPPA).

Description

An R object that contains information on Human Phenotype Phenotypic Abnormality terms. These terms are organised as a direct acyclic graph (DAG), which is further stored as an object of the class 'igraph' (see http://igraph.org/r/doc/aaa-igraph-package.html). This data is prepared based on http://compbio.charite.de/svn/hpo/trunk/src/ontology/human-phenotype-ontology.obo.

Usage

data(obo.HPPA)

Value

• an object of class "igraph". As a direct graph, it has attributes to vertices/nodes:
  • vertex attributes: "name" (i.e. Term ID), "term_id" (i.e. Term ID), "term_name" (i.e. Term Name), "term_namespace" (i.e. Term Namespace), and "term_distance" (i.e. Term Distance: the distance to the root; always 0 for the root itself)

References

Robinson et al. (2012) The Human Phenotype Ontology: a tool for annotating and analyzing human hereditary disease. Am J Hum Genet, 83:610-615. Fang H and Gough J. (2013) dcGO: database of domain-centric ontologies on functions, phenotypes, diseases and more. Nucleic Acids Res, 41(Database issue):D536-44.

Examples

data(obo.HPPA)
obo.HPPA