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Re: Bug#986141: ITP: snpeff -- genetic variant annotation and effect prediction toolbox

Hi Steffen,

Le 30/03/2021 à 16:32, Steffen Möller a écrit :

Am 30.03.21 um 15:25 schrieb Andreas Tille:
Hi Pierre,

On Tue, Mar 30, 2021 at 01:16:17PM +0200, Pierre Gruet wrote:
Yes! It is almost ready and I'm happy about this :)
That's understandable considering the lot of work.

Thank you for this. Well done, indeed.


While we are at it: I had to package SnpEff separately from its companion
SnpSift, as their source trees are now completely separated.
Do you (or someone else) know if SnpSift would be important to package?
Looking at the spreadsheet I am not sure it is worth packaging right now.
I have seen it mentioned from time to time but I'm not sure whether it
was just in connection with SnpEff.  Tony and Steffen (both in CC) might
give some more informed answer to your question.

The bcbio devs answered this here


where they look forward to exclusively use vcfanno to filter the variants.

Maybe a pointer to https://tracker.debian.org/pkg/vcfanno should be added
as a suggestion to snpeff?

Thanks a lot for the link of this issue; I agree such pointer would certainly be useful. Are you suggesting to add a ``Suggests: vcfanno'' to the d/control file of snpeff or did you have something else in mind?

Many thanks again!

Steffen (who should now have another look at bcbio again)

And many thanks to you!

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