conkit.io.a3m module

Parser module specific to HH-suite A3M sequence files

Credits

Stefan Seemayer and his A3MIO project [https://github.com/sseemayer/BioPython-A3MIO]

class A3mParser[source]

Bases: conkit.io._parser.SequenceFileParser

Parser class for A3M sequence files

read(f_handle, f_id='a3m', remove_inserts=True)[source]

Read a sequence file

Parameters:
  • f_handle – Open file handle [read permissions]
  • f_id (str, optional) – Unique sequence file identifier
  • remove_inserts (bool, optional) – Remove insert states [default: True]
Returns:
Return type:

SequenceFile
write(f_handle, hierarchy)[source]

Write a sequence file instance to to file

Parameters: