Where do I gather indel and frameshift information in SnpEff output?
I performed WGWPS and used a GATK pipeline. The last step was to produce my SnpEff summary files but I am unsure where my indel and frameshift information is.
My summary files appear to claim that all variants are SNPs.
Do I need to perform a different analysis step in order to find my indels and frameshift changes?
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mgranada3 •
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Thanks for your help