I have trio WES data for mothers, fathers and children with cancer. I have detected potential denovo mutations in children using varscan trio mode.
I am looking now for potential mosaic mutations in the child, Can I consider the denovo mutations with AF < 0.3 in the child and AF = 0 in both parents to be putative mosaic mutations ? I am trying to filter down my set of putative mosaic mutations, in order to move to the next step and validate them. (note: minimum coverage is 60x)
Many thanks in advance.