[Bioperl-l] the binary formerly known as WU-BLAST (Was: experimental Bio::Search::Tiling implementation)

Robert Hubley rhubley at systemsbiology.org
Wed May 20 13:23:20 EDT 2009

Not sure what the thread is here but I can make a guess.  I assume you 
are referring to the untimely demise of WUBlast and the resurrection of 
it as a commercial project by the folks at Advanced Biocomputing ( 
ABBlast )?   We are aware.  I have been working on fixing some 
incompatibilities in RepeatMasker/RepeatModeler/RepeatProteinMask etc.. 
and should have something out soon ( probably in a week or so ).  Warren 
assures me that you can still get ABBlast free ( or cheaply ) under an 
academic license.  Please let me know if you have other questions about RM.


Erich Schwarz wrote:
> On Tue, 19 May 2009, Robert Buels wrote:
>> Are the developers of RepeatMasker and RepeatModeler aware of this 
>> availability problem?  Perhaps they have some ideas?
>     Now that you point it out, I had taken it for granted that they 
> already knew, but shouldn't have assumed that.  So, thanks for 
> cc:ing Dr. Hubley!
>     (This is a somewhat non-BioPerl-ish topic -- thanks for 
> everybody's collective patience with that.  On the other hand, given 
> how prevalent a dependency WU-BLAST is for a lot of bioinformatics 
> Perl code, maybe this isn't *so* off-topic after all...)
> --Erich

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