Hi,
I am doing a genomic analysis of bats, and I have WGS for about 13 individuals but with unknown ancestry or relatedness, many from different populations.
I read that DeepVariant is one of the best genotype-callers, but I would like to consult first about the reliability and confidence on calling variants on a non-human system (yet mammalian..??). I read the blog about doing the mosquito-specific model, but the problem, as stated, is that I don't have trios data to train a model, nor I think that I can get it (nor samples or money), which is a very hard request.
I would appreciate a lot your comments and suggestions on what can I do, or if DeepVariant can confidently call variants.

Thanks;