Hello,
I've run GATK to call SNPs and got the corresponding VCF output. Now I'm wondering if there are some pre-established cut-offs for the phred, depth quality, etc that I could use to discard false positives.
any help will be welcome.
Tahnks
Jorge
I've run GATK to call SNPs and got the corresponding VCF output. Now I'm wondering if there are some pre-established cut-offs for the phred, depth quality, etc that I could use to discard false positives.
any help will be welcome.
Tahnks
Jorge
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