Drosophila, dbSNP, GATK

Question

[Kirill]

Guys and Girls,

I'm having trouble finding the Drosophila SNP for the GATK BaseRecalibrator. I found this post - GATK4, BaseRecalibrator, Known site, Drosophila where the guy links to http://www.iipl.fudan.edu.cn/FlyVar/sourcefordownloading.jsp, but the site is noy working. In flybase I also did not find SNPs.

Where can I find the SNPs from drosophila?

Thanks in advance

Answer 1

[GenoMax]

You can find the VCF file from Ensembl via a old release here. This was imported from DPGP project.

Also found this: https://digital.csic.es/handle/10261/227749

https://zenodo.org/record/51693

[Kirill]

Many thanks!