Hi @pd3
I was trying to split the multiallelic variants using bcftools norm but I keep on getting an error. I got the VCF from here and subset it for region Pf3D7_03_v3:365177-366948 to test it on a small dataset.
bcftools norm --multiallelics -any --old-rec-tag OLD_CLUMPED --atomize -o bcftools.normalized.gatk.vcf Pf3D7_03_v3.pf7.vcf.gz
Segmentation fault (core dumped)