How to merge multiple patient’s vcf files (indel and snv) with different IDs?
Hi all, I have some VCF files for my patients, each patient has 2 files( indel.vcf , snv.vcf) and I want to merge these file by the script bellow:
java -jar gatk-package-184.108.40.206-local.jar MergeVcfs -I /PATH_TO_patient1_ID_indel.vcf -I /PATH_TO_patient1_ID_snv.vcf -O /PATH_TO_patient1_ID_merged.vcf
I don’t know how to do this for multiple patients with different IDs.
Thanks for any help.
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