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Which annotation tool should be used for running DriverMl

Open bagieutopia opened this issue 1 year ago • 0 comments

I have run DriverML with my variant data which was previously annotated using Funcotator2 I manually changed the variant classification further to match the terms prescribed in your documentation (Silent, Missense_Mutation, Nonsense_Mutation, Splice_Site, Frame_Shift_Del, Frame_Shift_Ins, In_Frame_Del, and In_Frame_Ins). However, upon running except 1 all the variants in my file have a high P value and hence unusable. Can you please recommend fixes for this? which annotation tool do I use to avoid manually renaming the variant classification terms. Also my cohort doesn't have any normal samples so during variant calling I ran mutect2 on tumor only mode with hg38 as reference could this be the issue? please advice

bagieutopia avatar Jan 13 '25 05:01 bagieutopia