GermlineStructuralV-nf is a pipeline for identifying structural variant events in human Illumina short read whole genome sequence data. GermlineStructuralV-nf identifies structural variant and copy number events from BAM files using [Manta](https://github.com/Illumina/manta/blob/master/docs/userGuide/README.md#de-novo-calling), [Smoove](https://github.com/brentp/smoove), and [TIDDIT](https://github.com/SciLifeLab/TIDDIT). Variants are then merged using [SURVIVOR](https://github.com/fritzsedlazeck/SURVIVOR), and annotated by [AnnotSV](https://pubmed.ncbi.nlm.nih.gov/29669011/). The pipeline is written in Nextflow and uses Singularity/Docker to run containerised tools.