[Genome] Where to find Perlegen file for hg17?

[Rachel Harte]

Shan,

The downloads for all the tables in the databases are available on our 
Downloads server. You can find this by clicking on the "Downloads" link 
on the side menu bar on the Browser home page. You can then follow links 
to the Human hg17 Annotation database downloads. Or you can go directly 
to:

http://hgdownload.cse.ucsc.edu/goldenPath/hg17/database/

The file for the Perlegen data is:
snpRecombRatePerlegen.txt.gz

I hope that this helps you.

Rachel

  On Tue, 17 Oct 2006, Shan Yang wrote:

> Hi,
> In hg17 genome browser there is a "Per legen" track for SNP recomb
> rates. But I cannot find the corresponding downloadable file for that track.
>
> I also query on table browser for that track. The problem is that
> from the table browser, I get the perlegen data of each position. It
> is in a different format as what is in the file, where each region
> with the same data value is reported. Since the output of table
> browser won't exceed 100K, for a 1Mb region, I have to query 10 times
> to get the whole data set. Now I have 10 3Mb regions that I need to
> query, that is a tedious 300 queries.
> If I can find "snpRecombRatePerlegen", it will be a much easier job
> for me. Could you give me a place where I can find it?
>
> Thanks a lot!
>
> Shan
>
>
>
> Shan Yang, PhD
> Genome Biology Division, L-441
> Biosciences Directorate
> Lawrence Livermore National Laboratory
> 7000 East Ave, Livermore, CA, 94550
>
> Ph:  925-422-9151
> Fax: 925-422-2099
> _______________________________________________
> Genome maillist  -  Genome at soe.ucsc.edu
> http://www.soe.ucsc.edu/mailman/listinfo/genome
>

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