github.com/CuriousTim/gatk-sv/MakeCohortBatchMap

Automatic Tools and Workflows
1

GATK-SV

A structural variation discovery pipeline for Illumina short-read whole-genome sequencing (WGS) data.

For technical documentation on GATK-SV, including how to run the pipeline, please refer to our website.

Repository structure

  • /dockerfiles: Resources for building pipeline docker images
  • /inputs: files for generating workflow inputs
    • /templates: Input json file templates
    • /values: Input values used to populate templates
This is a companion discussion topic for the original entry at github.com/CuriousTim/gatk-sv/MakeCohortBatchMap