mgkit.mappings.go module

Module containing classes and functions to deal with Gene Ontology data

class mgkit.mappings.go.Kegg2GOMapper(fname=None)[source]

Bases: mgkit.kegg.KeggMapperBase

Class holding mappings KOs->GO

columns_string = 'go-id'
load_go_names(fname)[source]
load_goslim_mapping(f_handle)[source]
map_kos_go(kos, contact, skip=False)[source]

Map a list of KOs to GO ids

query_string = 'database:(type:ko {0})'
write_association_file(f_handle)[source]
mgkit.mappings.go.download_data(contact, kegg_data='kegg.pickle', go_data='go_data.pickle')[source]

Function to download Gene Ontology data