Question

Frontmost snp callers for plant genomes

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4.5 years ago

Denis ▴ 290

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?

alignment next-gen SNP genome • 561 views

ADD COMMENT • link updated 4.5 years ago by JC 13k • written 4.5 years ago by Denis ▴ 290

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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).

ADD REPLY • link 4.5 years ago by GenoMax 141k

score 1 · Answer 1 · 2019-10-30

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4.5 years ago

JC 13k

For plants and other polyploid organism I prefer FreeBayes

ADD COMMENT • link 4.5 years ago by JC 13k