Hi everyone, I am working with the 1000 Genomes VCFs from the New York Genome Center (30x on GRCh38). The VCF obviously provides overall and …

Hi, all What is gnomAD allele frequency? How to calculate the population allele frequency of a variant in gnomAD? What is the difference between VAF, …

the variant allele frequency(VAF) related to time-series, e.g. higher VAF related to early mutation, lower VAF related late occurred mutation. However, if the copy number …

I calculated the variant allele frequency (vaf) for the Strelka variants using [Stelka parser](https://github.com/biobenkj/StrelkaParser). Now, I want to add that vaf into my vcf file. …

Hi I have calculated `Variant Allele Frequency (VAF)` for called SNVs and INDELs called by Strelka separately. For getting VAF, I done VAF = Tumour …

Hi I have called INDELs for tumor/matched normal by Strelka caller In .vcf header I have ##FORMAT=<ID=TAR,Number=2,Type=Integer,Description="Reads strongly supporting alternate allele for tiers 1,2"> ##FORMAT=<ID=TIR,Number=2,Type=Integer,Description="Reads …

Hi all, So, I am interested in computing the VAF (variant allele frequency) by extracting values from a VCF file. From my understanding, the VAF …

Hi all.. Anyone can help explaining the difference between MAF (mutant allele) and VAF (variant allele) frequency? Thanks

My understanding is that Haplotypecaller is specifically designed to call variant from DNA-Seq data. However, RNA-Seq has different (more complicated) allele frequency than DNA-Seq. So …

Can anyone tell me the difference between the frequency output provided by the VarScan? I know one is for normal and other is for the …