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PostPosted: Sun Aug 04, 2013 4:08 pm 
Hello,

We would like to use your useful tool to annotate ChIP-seq peaks generated by our ChIP-Seq web service (http://ccg.vital-it.ch/chipseq). Our peak caller program (ChIP-Peak) generates peak lists in BED format. We were wondering if it were possible to submit queries to GREAT using an HTML link where we would specify the name or address of our bed file, so as to be able to directly link our results from ChIP-peak to your Web service.

Thank very much in advance.
Regards,
G
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PostPosted: Sun Aug 04, 2013 4:12 pm 
Site Admin
Hello,

You can definitely submit queries to GREAT using an HTML link. Please see http://bejerano.stanford.edu/help/display/GREAT/Programming+Interface for details on how to use our programming interface. In essence, you need to give GREAT the location of your BED file and how you want the output (either in the web interface you normally see or a downloadable text file) as GET parameters.

Good luck and let us know if you run into any problems!

Bejerano Team
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