Bootstrapping-for-BQSR @ NCI-Gadi is a pipeline for bootstrapping a variant resource to enable GATK base quality score recalibration (BQSR) for non-model organisms that lack a publicly available variant resource. This implementation is optimised for the National Compute Infrastucture's Gadi HPC. Multiple rounds of bootstrapping can be performed. Users can use [Fastq-to-bam @ NCI-Gadi](https://workflowhub.eu/workflows/146) and [Germline-ShortV @ NCI-Gadi](https://workflowhub.eu/workflows/143) to produce required input files for Bootstrapping-for-BQSR @ NCI-Gadi. Infrastructure\_deployment\_metadata: Gadi (NCI)