Feature request: allele depths in FORMAT

[rowanhowellGE]

Hi,

We have some tools that expect to see allele depths in FORMAT column (ie A,C,G,T or AU,CU,GU,TU) and TIR/TAR for indels. Would be great if there was a way to get these in the vcf output.

Thanks,
Rowan

[kishwarshafin]

@rowanhowellGE ,

Can you expand on a bit what your request is? We do report allele depths under AD field and frequency under VAF field.

[rowanhowellGE]

They are described under allelic depth here https://support.illumina.com/help/variantstudio/Content/Vault/Informatics/Sequencing_Analysis/VS/swSEQ_mVS_SomaticVCFs.htm . Basically just count for each allele in tumour sample.