pypath.utils.orthology

members:

Functions

get_df(target[, source, id_type, ...])	Create a data frame for one source organism and ID type.
get_dict(target[, source, id_type, ...])	Create a dictionary for one source organism and ID type.
get_manager()	Access the orthology manager.
init()	Initialize the orthology manager.
translate(identifiers, target[, source, ...])	Translate one or more identifiers by orthologous gene pairs.
translate_df(df, target[, source, cols, ...])	Translate columns in a data frame.

Classes

EnsemblOrtholog(id, types, hc)
EnsemblOrthology(target[, source, id_type, ...])
HomologeneOrtholog(id)
HomologeneOrthology(target[, source, ...])
OmaOrtholog(id, rel_type, score)
OmaOrthology(target[, source, id_type, ...])
OrthologBase()
OrthologMeta(name, supercls, attrs, resource)
OrthologyManager([cleanup_period, lifetime])
OrthologyTableKey(source, target, ...)
ProteinOrthology(target[, source, id_type, ...])
Proteomes([preload_prot, only_swissprot])
PtmOrthology(target[, source, ...])
SequenceContainer([preload_seq, isoforms])