Entering edit mode
4.2 years ago
zizigolu
★
4.3k
HI
I calculated variant allele frequency for my INDELs (.vcf file) but returned empty field like below
Chrom Position Ref Alt TumorReadCount TumorVariantAlleleCount TumorReferenceAlleleCount NormalReadCount NormalVariantAlleleCount NormalReferenceAlleleCount VAF
chr1 9773418 AACAG A 0 0
chr1 19823504 T TATATATA 0 0
chr1 22788886 C CA 0 0
chr1 23511347 CGCCACCTGGTG C 0 0
chr1 25920544 C CA 0 0
chr1 27105930 T TG
Is it normal? I mean should I expect any VAF for INDEL at all or only SNPs does have VAF? Because for SNP for the same patient I found VAF