mbfa - Murasaki Binary FASTA format converter
mbfa [options...] [input] [input2 ...] #convert [input] and [input2 ...] to Muraaski Binary FASTA files
Murasaki processes sequence data using a 2-bit format where each base is reprsented using 2 bits. There's a number of pre-existing formats that do similar things, however in particular Murasaki needs to know about the metadata that can't be expressed in just 2 bits (eg. where sequences of NNNNs are, sequence breaks when multiple sequences are included in a FASTA file, etc.), therefore the MBFA format includes this data as well. Ordinarily these files are generated automatically by Murasaki when first run on a new sequence.
Because the file format is designed mesh closely with Murasaki, the
actual file extension will vary to reflect your architecture. It will
generally be some form of .mbfa[48][48] (e.g. .mbfa88 (the
default gcc build on an amd64)).
Show metadata about each MBFA specified.
By default mbfa will skip files that already have recent .mbfa files. This option forces the regeneration of these files.
Makes errors fatal. Ordinarily if you specify multiple files, mbfa will try to convert all of them even if one fails emitting a warning. With --fatal it will stop and exit with an error if there's a problem.
Geneates FASTA output corresponding based on the MBFA data to stdout.
What you'd expect.
GNU General Public License, version 3 (GPLv3)
http://murasaki.sourceforge.net
Kris Popendorf <krisp@dna.bio.keio.ac.jp>
murasaki(1), geneparse(1)