This is the command gmod_fasta2gff3.plp 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
$O - Convert FASTA to simple GFF3
SYNOPSYS
% $O [options]
COMMAND-LINE OPTIONS
--fasta_dir Directory contain fasta files
(default: ./fasta)
--gfffilename Name of GFF3 file to be created
(default: ./out.gff)
--type SO type to assign to each feature
(default: EST)
--source Text to appear in source column
(default: .)
--attributes Additional tag=value pairs to appear in column 9
--nosequence Suppress the ##FASTA section (ie, don't
print DNA sequences)
DESCRIPTION
This script simply takes a collection of fasta files and converts them to simple GFF3
suitable for loading into chado.
AUTHORS
Scott Cain <[email protected]>
Copyright (c) 2006
This library is free software; you can redistribute it and/or modify it under the same
terms as Perl itself.
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