I want to know what 'disableGATKTraversal' mean.
This is not described anywhere in this usage.
If I Add '--disableGATKTraversal' to my scripts(i.e. SVPreprocessing, SVDiscovery, SVGenotyping, CNVDiscovery), What does happen result?
Note that the default value for -disableGATKTraversal in all recent versions of Genome STRiP is true.
You would use -disableGATKTraversal false to turn it off.
Genome STRiP sits on top of the GATK engine, but to increase performance the code by default reads from the bam files directly when necessary rather than using the GATK engine's map/reduce style traversal. This means that some GATK engine arguments have no effect in Genome STRiP walkers. If you use -disableGATKTraversal false the code will revert to using the full GATK engine. There is likely no good reason for you to do this.