annotationdbi: base structures and functions for annotations¶
The module reflects the content of the R/Bioconductor package AnnnotationDbi. It defines Python-level classes for the R/S4 classes, and gives otherwise access to R-level commands the usual rpy2:robjects way.
The variable annotationdbi_env in the module is an rpy2.robjects.REnvironment for the modules namespace. Accessing explicitly a module’s object is then straightforward.
The class inheritance diagram presents the parent-child relationships between the elements.
- class bioc.annotationdbi.AnnDbBimap¶
- get_lkeys()¶
- get_rkeys()¶
- lkeys¶
- mappedlkeys()¶
- mappedrkeys()¶
- rkeys¶
- set_lkeys(value)¶
- set_rkeys(value)¶
- subset(lkeys=None, rkeys=None, objname=None)¶
- class bioc.annotationdbi.AnnDbMap¶
- class bioc.annotationdbi.Bimap¶
A Bimap as defined in the R package AnnotationDbi
- count_mappedkeys()¶
- keys()¶
- mappedkeys()¶
- subset(lkeys=None, rkeys=None)¶
- class bioc.annotationdbi.GOTerms¶
- GOID¶
- maps AnnotationDbi::GOID
- definition¶
- maps AnnotationDbi::Definition
- ontology¶
- maps AnnotationDbi::Ontology
- secondary¶
- maps AnnotationDbi::Secondary
- synonym¶
- maps AnnotationDbi::Synonym
- term¶
- maps AnnotationDbi::Term
- bioc.annotationdbi.annotationdbi_conversion(robj)¶