Jason,
The rtracklayer provides an interface to the UCSC browser. In particular
rtracklayer::export can export a SimpleRleList to a bed file that you
can upload to UCSC.
Patrick
On 3/16/10 6:50 AM, Jason Lu wrote:
Hi,
I would like get suggestions on what is the best way to do this. I
have a "SimpleRleList" object, in which the range coordinates are
relevant to an ensembl transcript (ranges from 1 to the total length
of the transcript). I would like to show my data on the UCSC browser,
so I need to map those coordinates to the genome. Currenty I wrote my
own script to do this, based on the exon locations from biomart. There
got to be an easy way to do this, but don't seem to find a quick
answer. Sorry if this has been answered.
Thanks.
Jason
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