Describe the complexity of an assembly region
This table summarizes the command-line arguments that are specific to this tool. For more details on each argument, see the list further down below the table or click on an argument name to jump directly to that entry in the list.
| Argument name(s) | Default value | Summary | |
|---|---|---|---|
| Optional Tool Arguments | |||
| --assembly-complexity-reference-mode |
false | If enabled will treat the reference as the basis for assembly complexity as opposed to estimated germline haplotypes | |
Arguments in this list are specific to this tool. Keep in mind that other arguments are available that are shared with other tools (e.g. command-line GATK arguments); see Inherited arguments above.
If enabled will treat the reference as the basis for assembly complexity as opposed to estimated germline haplotypes
boolean false
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GATK version 4.6.2.0 built at Sun, 13 Apr 2025 13:21:43 -0400.