Bio.SearchIO.HmmerIO.hmmer3_text module

Bio.SearchIO parser for HMMER plain text output format.

class Bio.SearchIO.HmmerIO.hmmer3_text.Hmmer3TextParser(handle)

Bases: object

Parser for the HMMER 3.0 text output.

__init__(self, handle)

Initialize the class.

__iter__(self)

Iterate over query results.

class Bio.SearchIO.HmmerIO.hmmer3_text.Hmmer3TextIndexer(*args, **kwargs)

Bases: Bio.SearchIO.HmmerIO._base._BaseHmmerTextIndexer

Indexer class for HMMER plain text output.

qresult_start = b'Query: '

qresult_end = b'//'

__iter__(self)

Iterate over Hmmer3TextIndexer; yields query results’ key, offsets, 0.