The standard BLAST parser in BioJava cannot understand PsiBLAST output as far as I'm aware. I haven't used PsiBLAST much so I don't know if you can change its output format, but if you can persuade it to output its results in NCBI BLAST format instead, then you might have more luck.
BioPerl most definitely does have functions for the job. cheers, Richard -----Original Message----- From: [EMAIL PROTECTED] on behalf of Tal Blum Sent: Mon 6/27/2005 12:10 AM To: biojava-l@biojava.org Cc: Subject: [Biojava-l] Psi-Blast results Hi, I need to get Psi-Blast results for a large dataset of proteins. Does anyone know if there are any free tools or classes to do that? Thanks, Tal _______________________________________________ Biojava-l mailing list - Biojava-l@biojava.org http://biojava.org/mailman/listinfo/biojava-l _______________________________________________ Biojava-l mailing list - Biojava-l@biojava.org http://biojava.org/mailman/listinfo/biojava-l
