Package Bio :: Package SearchIO :: Package HmmerIO :: Module hmmer3_text :: Class Hmmer3TextParser
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Class Hmmer3TextParser

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object --+
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        Hmmer3TextParser

Parser for the HMMER 3.0 text output.
Instance Methods [hide private]
 
__init__(self, handle)
x.__init__(...) initializes x; see x.__class__.__doc__ for signature
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__iter__(self) source code
 
_read_until(self, bool_func)
Reads the file handle until the given function returns True.
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_parse_preamble(self)
Parses HMMER preamble (lines beginning with '#').
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_parse_qresult(self)
Parses a HMMER3 query block.
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_parse_hit(self, qid, qdesc)
Parses a HMMER3 hit block, beginning with the hit table.
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_create_hits(self, hit_attrs, qid, qdesc)
Parses a HMMER3 hsp block, beginning with the hsp table.
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_parse_aln_block(self, hid, hsp_list)
Parses a HMMER3 HSP alignment block.
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Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __repr__, __setattr__, __sizeof__, __str__, __subclasshook__

Properties [hide private]

Inherited from object: __class__

Method Details [hide private]

__init__(self, handle)
(Constructor)

source code 
x.__init__(...) initializes x; see x.__class__.__doc__ for signature

Overrides: object.__init__
(inherited documentation)