Bio.Align.hhr module

Bio.Align support for hhr files generated by HHsearch or HHblits in HH-suite.

This module provides support for output in the hhr file format generated by HHsearch or HHblits in HH-suite.

You are expected to use this module via the Bio.Align functions.

class Bio.Align.hhr.AlignmentIterator(source)

Bases: Bio.Align.interfaces.AlignmentIterator

Alignment iterator for hhr output files generated by HHsearch or HHblits.

HHsearch and HHblits are part of the HH-suite of programs for Hidden Markov Models. An output files in the hhr format contains multiple pairwise alignments for a single query sequence.

__init__(source)

Create an AlignmentIterator object.

Arguments:

• source - input data or file name

__len__()

__abstractmethods__ = frozenset({})