Hi Yuan, Our engineer doesn't see that there is support in BioJava for calling blat and processing the psl format. We suggest that you contact BioJava for more information. You could run your own blat instance locally and execute it from java.
Here is information on downloading blat: http://genome.ucsc.edu/FAQ/FAQblat.html#blat3 Hope this helps you! If you have further questions, please contact the mailing list: [email protected]. Vanessa Kirkup Swing UCSC Genome Bioinformatics Group ---------- Forwarded message ---------- From: Yuan Jian <[email protected]> Date: Thu, Aug 11, 2011 at 12:48 AM Subject: [Genome] blat server To: "[email protected]" <[email protected]> Hello dear UCSC supporters, is it possible to use java or biojava to call blat server remotely? and how to do if can? thanks YU _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
