Run GRIDSS2 to get structural variants

GRIDSS2 ^[1]

It is a comprehensive characterisation of somatic structural variation using single breakend variants and structural variant phasing ^[2]

Installation

docker pull gridss/gridss
docker run gridss/gridss:latest

Usage

Usage: gridss [options] -r <reference.fa> -o <output.vcf.gz> -a <assembly.bam> input1.bam [input2.bam [...]]

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1. https://github.com/PapenfussLab/gridss ↩︎

2. https://pubmed.ncbi.nlm.nih.gov/34253237/ ↩︎