gffutils.interface.FeatureDB.features_of_type

FeatureDB.features_of_type(featuretype, limit=None, strand=None, order_by=None, reverse=False, completely_within=False)[source]

Returns an iterator of gffutils.Feature objects.

Parameters:

  • limit (string or tuple) – Limit the results to a genomic region. If string, then of the form “seqid:start-end”; if tuple, then (seqid, start, end).

  • strand ("-" | "+" | ".") – Limit the results to one strand

  • featuretype (string or tuple) – Limit the results to one or several featuretypes.

  • order_by (string or tuple) – Order results by one or many fields; the string or tuple items must be in: ‘seqid’, ‘source’, ‘featuretype’, ‘start’, ‘end’, ‘score’, ‘strand’, ‘frame’, ‘attributes’, ‘extra’.

  • reverse (bool) – Change sort order; only relevant if order_by is not None. By default, results will be in ascending order, so use reverse=True for descending.

  • completely_within (bool) – If False (default), a single bp overlap with limit is sufficient to return a feature; if True, then the feature must be completely within limit. Only relevant when limit is not None.