Re: [Gmod-schema] GRIN into Chado

[Cannon, E. K [C. S] <ekc...@ia...>]

Thanks Chris and Pankaj! 

I had just arrived at the sinking realization about part 1 below literally seconds before your notes arrived. Not a trivial task, and not one I want to attempt independently of the Planteome project.

Ethy

________________________________________
From: Jaiswal, Pankaj - OSU <jai...@sc...>
Sent: Thursday, June 2, 2016 2:39 PM
To: Chris Mungall; Cannon, Ethalinda K [COM S]
Cc: gmo...@li...; gmo...@li...
Subject: Re: [Gmod-schema] GRIN into Chado

On 6/2/2016 12:30 PM, Chris Mungall wrote:
> Hi Ethy,
>
> I believe there are two parts here
>
>  1. Extracting relevant info for GRIN, including mapping their
> descriptors onto TO terms
>  2. Loading this into Chado
>
> I believe the bulk of the work would be in 1. This is something we
> have been looking into in the Planteome project. Pankaj, is this
> something we're going to tackle soon? We don't want to duplicate
> effort here
>
Yes. As soon as Plant Disease work is done by Jorrit, he can move on to
mapping GRIN descriptors.

Pankaj

> Once 1 is done, it can pipe the results to 2 in a format like GAF or
> Phenopackets (phenopackets.org). There is a GAF loader for Chado, but
> no phenopackets one yet. Either way part 2 should be turning the handle.
>
> On 2 Jun 2016, at 11:48, Cannon, Ethalinda K [COM S] wrote:
>
>> Has anyone tried loading GRIN data into Chado? I seem to recall
>> mention of this having been done or planned to be done, but don't
>> remember by whom.
>>
>>
>> Ethy
>>
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--
Pankaj Jaiswal, PhD
Associate Professor
Dept. of Botany and Plant Pathology
2082 Cordley Hall
Oregon State University
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USA

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