[ensembl-dev] VEP Grantham amino acid distance

[Guillermo Marco Puche]

Hello Chris,

As I said I'm implementing this as an Ensembl Variant Effect Predictor 
plugin.
Input is an VCF file.

Best regards,
Guillermo.

On 04/29/13 10:03, cj5 at sanger.ac.uk wrote:
> Hi Guillermo,
> Not sure of your requrements, but if you want a simple lookup of a mtrix based upon the original paper,
>
> Grantham, R. Amino Acid Difference Formula to Help Explain Protein Evolution, Science 1974 Sep 6;185(4154):862-4.
>
> please see attached.
>
> regards
> Chris Joyce
>
>> Hello,
>>
>> I'm trying to calculate Grantham AA distance as a VEP plugin.
>>
>> Currently I'm doing it parsing HGSVp and calculating distance between
>> the two AA being parsed.
>>
>> Do you guys believe there's an easier and more efficient way to do this?
>>
>> Thank you.
>>
>> Best regards,
>> Guillermo.
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