Define where the pipeline should find input data and save output data.
Sketch size options for sourmash compute
Options for kmer computation
Options to translate RNA-seq reads into protein-coding sequences .
Remove ribosomal RNA with SortMeRNA
Options to adjust parameters and filtering criteria for read alignments.
Options to skip various steps within 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.