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vt leftalign -i mills.vcf -o mills.leftaligned.vcf
vt leftalign -i mills.vcf -o mills.leftaligned.vcf
=== Profile SNPs ===
Profile SNPs.
vt profile_snps -i mills.snps.sites.vcf
=== Profile Indels ===
Profile indels.
vt profile_indels -i mills.indels.sites.vcf
=== Profile MNPs ===
Profile MNPs.
vt profile_mnps -i mills.mnps.sites.vcf
=== sort ===
Sort variants according to contig lists in header.
vt sort -i mills.sites.vcf
=== split_by_variant ===
Split VCF files by variant type.
vt split_by_variant -i mills.sites.vcf
=== compute_<feature> ===
Compute feature of variant.
vt compute_feature -i mills.vcf
=== Resource Files ===
dbSNP
OMNI 1000G
Mills
HAPMAP
