On Mon, May 2, 2011 at 6:05 PM, Tim Smith <tim_smith_666@yahoo.com> wrote:

> Hi,
>
> I had a set of regions (e.g. 'chr7:94282859-94288530') from hg18 that I
> want to
> convert to hg19. Is there a way that I can do this in rtracklayer (or any
> other
> package)?
>
>

Hi,

rtracklayer has native support for lift-over. Use import.chain to bring in a
UCSC chain file and then call the liftOver function. See ?liftOver. This is
a lot faster than the UCSC executable (in my tests), and it has a
commercial-friendly license.

Michael



> thanks!
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