[Bioperl-l] HOW TO REMOTE BLAST UCSC DATABASE ?

[Sean Davis]

On 9/29/05 7:35 PM, "Ping Yao" <sdshlxh at gmail.com> wrote:

> Hi,group:
> Dose anyone know how to remote blast UCSC Blat database by perl or bioperl ?

You can use something like WWW::Mechanize to do this, constructing the
request by hand and then submitting it.  However, I would NOT recommend
doing this if you have more than a few sequences.  They have guidelines
about how often you can hit their site and will block access.

The faster way to do this is to download blat and run it locally.  It is
very fast and there are executables available for multiple platforms.

Sean