Define where the pipeline should find input data and save output data.
Most common options used for the pipeline
Options for when grouping reads by UMI
Options for when creating consensus reads
Options for when filtering consensus reads
Reference genome related files and options required for the workflow.
Parameters used to describe centralised config profiles. These should not be edited.
Set the top limit for requested resources for any single job.
Less common options for the pipeline, typically set in a config file.