GO_SS-class: GO_SS class object definition.

In abrionne/ViSEAGO: ViSEAGO: Easier data mining of biological functions organized into clusters using Gene Ontology and semantic similarity

Description

This class is invoked by build_GO_SS method in order to store enrich_GO_terms-class object, Information Content (IC), and GO terms or groups distances objects based on semantic similarity.

Slots

db

should be "Bioconductor", "EntrezGene", "Ensembl", or "Uniprot" ressource name.

stamp

date of stamp or annotation version if available in character.

organism

target species GO anotation in character.

ont

used ontology with "MF", "BP", or "CC".

topGO

list with topGO objects summary informations.

IC

Information Content (IC)

enrich_GOs

merge_enrich_terms output object (enrich_GO_terms-class object).

terms_dist

list of GO terms or groups distances objects based on semantic similarity.

See Also

Other GO_semantic_similarity: build_GO_SS, compute_SS_distances

abrionne/ViSEAGO documentation built on June 13, 2019, 2:27 p.m.