Module FastaIO
source code
Bio.AlignIO support for "fasta-m10" output from Bill
Pearson's FASTA tools.
You are expected to use this module via the Bio.AlignIO functions (or
the Bio.SeqIO functions if you want to work directly with the gapped
sequences).
This module contains a parser for the pairwise alignments produced by
Bill Pearson's FASTA tools, for use from the Bio.AlignIO interface where
it is refered to as the "fasta-m10" file format (as we only
support the machine readable output format selected with the -m 10
command line option).
This module does NOT cover the generic "fasta" file format
originally developed as an input format to the FASTA tools. The
Bio.AlignIO and Bio.SeqIO both use the Bio.SeqIO.FastaIO module to deal
with these files, which can also be used to store a multiple sequence
alignments.
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FastaM10Iterator
Alignment iterator for the FASTA tool's pairwise alignment output.
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