Frontmost snp callers for plant genomes

Question

[Denis]

Hello! I'm working with WGS data and looking for the most used software to find high quality SNPs and INDELs in plants with different ploidy levels. I've found two related posts, but seems they both already not up to date and futhermore not focused on plant genomes:

A: Snp Calling Tools And Costs
Variant Caller Of Choice?

Could you help me please?

[GenoMax]

Pro-tip: You can paste links for biostars threads in your posts. Biostars code will automatically convert them to links with names (as you see above).

Answer 1

[JC]

For plants and other polyploid organism I prefer FreeBayes