Module Expr Str Import alias TryExcept body ImportFrom alias alias ImportFrom alias handlers ExceptHandler type NameLoad body Import alias Expr Call AttributeLoad NameLoad attr Str ImportFrom alias alias Assign NameStore Dict Str Str Str Num Num Num Assign NameStore Call NameLoad GeneratorExp TupleLoad NameLoad NameLoad comprehension TupleStore NameStore NameStore Call AttributeLoad NameLoad attr FunctionDef arguments args NameParam defaults body Expr Str If Call NameLoad NameLoad AttributeLoad NameLoad attr body Assign NameStore Call NameLoad NameLoad Assign NameStore Dict Str Str Str Str ListLoad AttributeLoad NameLoad attr ListLoad AttributeLoad NameLoad attr ListLoad AttributeLoad NameLoad attr ListLoad AttributeLoad NameLoad attr Expr Call AttributeLoad NameLoad attr AttributeLoad NameLoad attr Return Call NameLoad Call NameLoad BinOpSub AttributeLoad NameLoad attr Num AttributeLoad NameLoad attr keyword AttributeLoad NameLoad attr keyword AttributeLoad NameLoad attr keyword SubscriptLoad NameLoad Index AttributeLoad NameLoad attr keyword NameLoad decorator_list FunctionDef arguments args NameParam defaults kwarg body Expr Str Assign NameStore SubscriptLoad Call AttributeLoad AttributeLoad NameLoad attr attr Str Str Index Num Assign NameStore SubscriptLoad Call AttributeLoad AttributeLoad NameLoad attr attr Str Str Index Num Assign NameStore SubscriptLoad Call AttributeLoad AttributeLoad NameLoad attr attr Str Str Index Num Assign NameStore SubscriptLoad Call AttributeLoad AttributeLoad NameLoad attr attr Str Str Index Num Assign NameStore SubscriptLoad NameLoad Index AttributeLoad NameLoad attr Assign NameStore BinOpAdd AttributeLoad AttributeLoad AttributeLoad NameLoad attr attr attr Num Assign NameStore AttributeLoad AttributeLoad AttributeLoad NameLoad attr attr attr Assign NameStore AttributeLoad NameLoad attr Assign NameStore AttributeLoad NameLoad attr Assign NameStore Call NameLoad AttributeLoad NameLoad attr Expr Call AttributeLoad NameLoad attr Str Str Expr Call AttributeLoad NameLoad attr Str Str Expr Call AttributeLoad NameLoad attr Str Str Expr Call AttributeLoad NameLoad attr Str Str Return Call NameLoad NameLoad NameLoad NameLoad NameLoad NameLoad NameLoad NameLoad NameLoad NameLoad NameLoad decorator_list
N/A N/A 
Module for integration with BioPython, specifically SeqRecords and SeqFeature
objects.
 N/A six N/A N/A Bio.SeqFeature SeqFeature FeatureLocation Bio SeqIO N/A N/A N/A ImportError N/A N/A warnings N/A N/A N/A warnings warn BioPython must be installed to use this module feature Feature feature_from_line N/A _biopython_strand N/A + - . 1 -1 0 N/A _feature_strand N/A dict N/A N/A v k N/A N/A k v N/A N/A _biopython_strand items to_seqfeature N/A N/A feature N/A N/A N/A 
    Converts a gffutils.Feature object to a Bio.SeqFeature object.

    The GFF fields `source`, `score`, `seqid`, and `frame` are stored as
    qualifiers.  GFF `attributes` are also stored as qualifiers.

    Parameters
    ----------
    feature : Feature object, or string
        If string, assume it is a GFF or GTF-format line; otherwise just use
        the provided feature directly.
     N/A N/A isinstance feature N/A six string_types N/A N/A feature N/A feature_from_line feature N/A qualifiers N/A source score seqid frame N/A N/A feature source N/A N/A feature score N/A N/A feature seqid N/A N/A feature frame N/A N/A N/A qualifiers update N/A feature attributes N/A N/A SeqFeature N/A FeatureLocation N/A N/A feature start 1 N/A feature stop id N/A feature id type N/A feature featuretype strand N/A _biopython_strand N/A N/A feature strand qualifiers qualifiers N/A from_seqfeature N/A N/A s N/A kwargs N/A N/A 
    Converts a Bio.SeqFeature object to a gffutils.Feature object.

    The GFF fields `source`, `score`, `seqid`, and `frame` are assumed to be
    stored as qualifiers.  Any other qualifiers will be assumed to be GFF
    attributes.
     N/A source N/A N/A N/A N/A s qualifiers get source . N/A 0 N/A score N/A N/A N/A N/A s qualifiers get score . N/A 0 N/A seqid N/A N/A N/A N/A s qualifiers get seqid . N/A 0 N/A frame N/A N/A N/A N/A s qualifiers get frame . N/A 0 N/A strand N/A _feature_strand N/A N/A s strand N/A start N/A N/A N/A N/A s location start position 1 N/A stop N/A N/A N/A s location end position N/A featuretype N/A s type N/A id N/A s id N/A attributes N/A dict N/A s qualifiers N/A N/A N/A attributes pop source . N/A N/A N/A attributes pop score . N/A N/A N/A attributes pop seqid . N/A N/A N/A attributes pop frame . N/A N/A Feature seqid source featuretype start stop score strand frame attributes kwargs N/A