[Genome] affymetrix 500k snp track coloring

[Heather Trumbower]

Yohan:

Actually what we did is split the NSP and STY data into 2 different subtracks 
in the "SNP Array" track in hg17 (the Human May 2004 assembly) but they are all 
the same color.

The tables are called snpArrayAffy250Nsp and snpArrayAffy250Sty.

Here is a link which shows the configuration of the SNP Array track:

http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg17&g=snpArray&c=chr1&position=chr1:6500000-7000000.

You can alter the display mode and choose which arrays to view.

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

Heather Trumbower
UCSC Genome Bioinformatics Group


On Wed, 29 Nov 2006, Yohan Lee wrote:

> hi,
> i was wondering why the affymetrix 500k snp track coloring annotation
> track has snps colored
> as green or blue.
> i am assuming this is to account that some snps are from STY arrays
> and some are from NSP arrays.
> which leads to my next question, which color is assigned to which snp type.
> 
> thanks
> yohan lee
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