I have an annotated vcf file , I want to use Varianttotable tools in Gatk to extract data in vcf file to table.
Especially, I want to split the data in (info) in vcf file and save all other data in the table.
This my code :
cd /app/GATK-4.1.4/ gatk VariantsToTable \ > -V /myfiles/COPY-filter.vcf \ > -F CHROM -F POS -F TYPE -GF AD \ > -O /myfiles/output.table
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