variant calling with biological replicates
I am new to use GATK pipeline for SNP calling. I am currently working on four different populations with 6 clones. Each clone has 3 biological replicates. How do I combine the variant calling step for the replicates?
I went through the GATK documentation on cohorts and stuff, but I am kind of not satisfied if I should continue this. Does combining the resultant vcf file also a possibility.
Please help!
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biobudhan •
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biobudhan •
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