maf_to_fasta - convert MAF file to FASTA
maf_to_fasta [options...] maf fasta
maf_to_fasta, part of the bioruby-maf library, converts Multiple Alignment Format (MAF) files to FASTA format. It does not attempt to combine alignment blocks, but simply writes out each sequence in order.
The maf input file must be a valid MAF file of any length.
The fasta output file will be written in FASTA format.
The options are only useful for performance measurement.
Convert a MAF file to FASTA:
$ maf_to_fasta chrY.maf chrY.fa
maf_to_fasta is a Ruby program and relies on ordinary Ruby
maf_to_fasta should provide flexibility in selecting the alignment
blocks and sequences to convert, and perhaps allow alignment blocks to
be spliced together.
maf_to_fasta is copyright (C) 2012 Clayton Wheeler.