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mbfa-mpi - Online in the Cloud

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This is the command mbfa-mpi that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

PROGRAM:

NAME


mbfa - Murasaki Binary FASTA format converter

SYNOPSIS


mbfa [options...] [input] [input2 ...] #convert [input] and [input2 ...] to Muraaski Binary FASTA files

DESCPRIPTION


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)).

OPTIONS


--info|-i
Show metadata about each MBFA specified.

--force|-f
By default mbfa will skip files that already have recent .mbfa files. This option
forces the regeneration of these files.

--fatal|-F
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.

--fasta|-A
Geneates FASTA output corresponding based on the MBFA data to stdout.

--help|-h, --version|-V, --verbose|-V
What you'd expect.

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