pypath.core.annot.GOCustomIntercell§

class pypath.core.annot.GOCustomIntercell(categories=None, go_annot=None, ncbi_tax_id=9606, **kwargs)[source]§

__init__(categories=None, go_annot=None, ncbi_tax_id=9606, **kwargs)[source]§: Same as :class:pypath.go.GOCustomAnnotation initialized with the categories defined in pypath.intercell_annot.intercell_categories.

Methods

`__init__`([categories, go_annot, ncbi_tax_id])	Same as :class:`pypath.go.GOCustomAnnotation` initialized with the categories defined in `pypath.intercell_annot.intercell_categories`.
`get_annotation`(category[, uniprots])	For a category name returns a set of UniProt IDs annotated with the corresponding Gene Ontology terms or expression.
`get_annotations`([uniprots])	Returns a dict with set of UniProt IDs for each category.
`process_categories`()	Translates GO term names listed in categories to GO terms ACs.
`reload`()	Reloads the object from the module level.

get_annotation(category, uniprots=None)§

For a category name returns a set of UniProt IDs annotated with the corresponding Gene Ontology terms or expression.

Parameters:

category (str) – The category name, should be a key in the categories dict.
uniprots (set) – A set or list of UniProt IDs. If None, annotations based on all UniProts in GO annotation will be returned.

get_annotations(uniprots=None)§

Returns a dict with set of UniProt IDs for each category.

Parameters:: uniprots (set) – A set or list of UniProt IDs. If None, annotations based on all UniProts in GO annotation will be returned.

process_categories()§: Translates GO term names listed in categories to GO terms ACs.