Hi all,
After mapping our mRNA-reads to the genome, I've been relying on the INNER-JOIN function of UCSC Galaxy to hook my mapped reads up to exons, introns, intergenic areas and so on... As uploading large files to Galaxy is a pain in the %€$ (at least from Europe), and as we don't have a local mirror yet, I would like to ask if anyone knows of a script / program (perl, c, python) that does this quickly? Basically it's a simple interval overlap problem, but it seems to be multiplicative in terms of CPU usage..
Thx in advance,
JW, Cph. Uni
After mapping our mRNA-reads to the genome, I've been relying on the INNER-JOIN function of UCSC Galaxy to hook my mapped reads up to exons, introns, intergenic areas and so on... As uploading large files to Galaxy is a pain in the %€$ (at least from Europe), and as we don't have a local mirror yet, I would like to ask if anyone knows of a script / program (perl, c, python) that does this quickly? Basically it's a simple interval overlap problem, but it seems to be multiplicative in terms of CPU usage..
Thx in advance,
JW, Cph. Uni
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