[Genome] (no subject)

[Rachel Harte]

Hello Shop Mallick,

To convert from hg16 to hg18 coordinates, you will only need to use one
liftOver chain file and that is hg16ToHg18.over.chain. You can download
this file from the downloads server by clicking on the link to LiftOver
files in the human hg16 section or go directly to:

http://hgdownload.cse.ucsc.edu/goldenPath/hg16/liftOver/

I hope that this helps you. Please let us know if you have further
questions.

Rachel

Rachel Harte
UCSC Genome Bioinformatics Group
http://genome.ucsc.edu


On Wed, 18 Apr 2007, Swapan Mallick wrote:

> Hello,
>
> I'm working at the genetics department in the Harvard Medical School.
>
> We have a set of alignments which were created for version 16 of the human
> genome. We wish to map these to version 18, and I would like to build
> wrappers around the liftover tool to do this.
>
> I have already downloaded the chain file:
> hg18ToHg17.over.chain
>
> But I think I need the corresponding files: hg16ToHg18.over.chain . Is
> this available?
>
> Best regards,
> Shop Mallick
>
>
> ---------------------------------------------------------
> Dr Swapan 'Shop' Mallick
> Dept. of Genetics
> Harvard Medical School, NRB
> 77 Avenue Louis Pasteur
> Boston, MA 02115
> Tel: +1-617-432-5993
> Email: shop at genetics.med.harvard.edu
> ---------------------------------------------------------
>
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