[Bioperl-l] WebBlat, where'd it go?

Chris Fields cjfields at uiuc.edu
Wed Apr 23 15:56:14 EDT 2008


It's no longer maintained (deprecated); see the following for an  
explanation:

http://article.gmane.org/gmane.comp.lang.perl.bio.general/13545

Basically, only local BLAT searches are supported through BioPerl.

chris

On Apr 23, 2008, at 2:39 PM, Arkady wrote:

> Hi folks,
>
> I'm trying to use BioPerl to run a BLAT search on the four primate
> genomes on UCSC. I understand that the proper tool for this is
> Bio::Tools::WebBlat. Unfortunately, it doesn't appear to be in my
> bioperl distribution (nor do I even know how to figure out what
> version that is, unfortunately, though it's a very recent install -- a
> month ago?). I also can't find it on CPAN. Is this deprecated? Has
> something else replaced it? Or are we always supposed to run local
> BLAT?
>
> Thanks.
>
> John Woods
>
> Institute for Cellular and Molecular Biology
> The University of Texas at Austin
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Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign





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