This is probably just a really basic/stupid question but...
i am looking for a list of all known equine SNPs for my WGS analysis pipeline . I have looked on ensembl under the variation section for the horse and i have downloaded the gvf file of all germline variations from the current Ensembl release for this species. But i have also looked on dbSNP and the newbatches section of that for the horse. I have downloaded the broad_genome batch that has 1163466 SNPs in, but then this isnt all of the known snps as other people have submitted new snps since.
Is the ensembl list the one that i want or am i missing something/doing it wrong.
Hope someone can help. Thanks in advance