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How to add Genomic Annotations Using SnpEff and VariantAnnotator for non-model organism?

JeegarJeegar CanadaMember

Hi All,

I am working on a non-model organism and have finished the variant calling process using GATK. I have a VCF file containing variants and my next task is to see the effect of those mutations on the genome. I have been looking at several threads for the same and could not quite grasp what was being written. How should I proceed? @Geraldine_VdAuwera @Sheila

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