NAME

Bio::BioStudio::BLAST

VERSION

Version 1.04

DESCRIPTION

AUTHOR

Sarah Richardson <notadoctor@jhu.edu>.

FUNCTIONS

make_blast_factory

_make_FASTA()

given a hashref of chromosomes (where the key is the name and the value is the
path, see Bio::BioStudio::Basic::gather_versions()), the BioStudio config
hashref, and a label, creates a FASTA file that contains all of their
sequences for BLAST database creation

make_BLAST_db()

given a hashref of chromosomes (where the key is the name and the value is the
path, see Bio::BioStudio::Basic::gather_versions()), the BioStudio config
hashref, and a label, creates a BLAST database containing all of the
chromosome sequences in the hashref

make_megaBLAST_index()

given the name of a BLAST database, a BioStudio config hashref, and a label,
creates a megaBLAST index to speed BLASTing

bl2seq_blastn()

bl2seq_blastp()

COPYRIGHT AND LICENSE

Copyright (c) 2011, BioStudio developers All rights reserved.

Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the name of the Johns Hopkins nor the names of the developers may be used to endorse or promote products derived from this software without specific prior written permission.

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