[GET-dev] Mapping build 37 SNPs to build 36 genomes?

[Kimberly Robasky]

I love this idea... when would be a good time to chat more, and with whom?

On Fri, Jun 18, 2010 at 6:30 PM, Alexander Wait Zaranek
<awaitz at post.harvard.edu> wrote:
>> (1) GET-Evidence should be more careful to link to the data set that
>> actually has the variant (rather than linking to all current data sets for
>> that variant).
>>
>> (2) Trait-o-matic should be able to display both data sets publicly, without
>> having both appear on the "public samples" front page.
>>
>> (3) GET-Evidence should remove the "genome X" sections when a public data
>> set becomes non-public (basically "stop linking to a previously public data
>> set" is not automated so it's no big surprise that this didn't happen
>> properly).  IIRC it does correctly handle "public data set is recomputed and
>> no longer has variant V" so it might not take much to fix this.
>>
> What we've all been discussing but hasn't crystallized into a plan is
> that GET-Evidence should only need to consider genomes in a "PGP
> standard genome format".   A different program, let's call it
> "Genomerator", should combine all available data sets into "PGP
> standard genome format" for consumption by GET-Evidence (and other
> applications.)   GET-Evidence, in that scenario, should still be able
> to tolerate updates to an individual's data but in the new "standard"
> format.
>
> Let's talk further?
>
> Sasha
>
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