Somatic Structure Variation on exome-seq data
category of my question: a)How do I (......)?
Hi, I am new to GATK exome-seq and would be grateful for any suggestions :)
I am planning to use GATK4 to perform Structure Variation analysis on whole-exome seq data (somatic).
My question is - is there any GATK pipeline available to perform such an analysis?
I found this workflow: https://github.com/broadinstitute/gatk-sv
but this pipeline is designed for whole-genome seq, I found a note that it will not work for exome sequencing data..
I would be most grateful for any help :)
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