[Feedback] Site Feedback: regarding arabidopsis pop gen data

[Marcela K. Monaco]

Dear Kate,

Could you please send me a specific example (e.g., variant id) to look at
and go through with you?  Thanks,

Marcela

==
Marcela Karey Monaco, PhD
Gramene Project Coordinator
Cold Spring Harbor Laboratory
One Bungtown Road, Williams #5
Cold Spring Harbor, NY 11724
Phone: 516-367-8808
Fax: 516-367-6851


On Wed, Jun 4, 2014 at 7:35 AM, feedback at gramene.org <feedback at gramene.org>
wrote:

> URL         : http://tools.gramene.org/search?query=AT2G46640
>
> Subject     : Site Feedback: regarding arabidopsis pop gen data
>
> Name        : Kate St.Onge
>
> Email       : kate.stonge at gmail.com
>
> Organization: Utrecht University
>
> Comments    :
>
> Hello,
> I have been using the population genetics tool to investigate SNP variants
> and I have some questions about the populations and variant population
> frequencies.
> When looking at a population genetic table displayed for a variant, the
> frequencies look ok, but the allele and genotype counts do not seem to make
> sense.
> Also, I would like to know exactly which individuals are in the
> populations, how can I get a list?
> Finally, when I go the "individual genotypes" page for a specific variant,
> and click "show" to see the variant in the populations, the data shown
> seems to be incorrect. There is usually no variations in the populations,
> even if in the population genetics page shows intermediate frequencies of
> the variant in the populations.
> what is going on here?
>
> thanks
> Kate
>
> http://www.warelab.org/bugs/view.php?id=4958
>
>
> _______________________________________________
> Feedback mailing list
> Feedback at gramene.org
> http://brie4.cshl.edu/mailman/listinfo/feedback
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://brie4.cshl.edu/pipermail/feedback/attachments/20140604/7cc19861/attachment.html>