[ensembl-dev] Perl Script

Will McLaren wm2 at ebi.ac.uk
Fri Jun 1 09:36:24 BST 2012

Hello Sunita,

Using the VEP is currently the only way to get Condel scores through
Ensembl for variant positions.

If you already have the scores of the constituent packages calculated (SIFT
and PolyPhen), you may be able to reuse some of the code in the Condel VEP
plugin to write a short script to do the Condel calculation for you.



On 31 May 2012 17:44, Koul, Sunita <sunita at pathology.wustl.edu> wrote:

>  Is there a Perl script available that can be used to get the Condel
> results for a VCF/tab delimited file
> I know the Variant effect predictor has the perl Package to calculate this
> value.
> Just wanted to get check if the code is available to get this values  just
> like the "variant_effect_predictor.pl" that takes the file as input and
> generates the values
> Sunita
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