When launching your own workflows, if that workflow has any arguments, whether optional or required, you will be given the option to set those at the time of launch.

When you click to run workflows on your samples, you will be brought to a new page, highlighting the number of samples and the workflow to be run. You will also see a summary of the arguments that are either optional or required for the launch. For Nextflow workflows, these arguments are sub-divided into their individual options based on the definitions set in the nextflow_schema.json. You can click to expand the various arguments under a given section. Examples of arguments are shown below.

Here, you will see some of the various argument types (e.g. integer, regex, boolean, string, among others), and some of the possible values. If any defaults are set in your nextflow_schema.json, these will be pre-populated into the fields. If any arguments are set as Required, you must provide a value in order to launch the workflow, unless a default has already been pre-populated.

Once you've set the arguments as needed, and confirmed your samples, click the "Run" button at the top-right of this screen!

Learn how to view the details of runs of workflows you have authored, as well as results, here!