Introduction Usage Parameters Output Releases

Define where the pipeline should find input data and save output data.

Path to comma-separated file containing information about the samples in the experiment.

type: string
default: ./samplesheet.csv
pattern: ^\S+\.csv$

You will need to create a design file with information about the samples in your experiment before running the pipeline. Use this parameter to specify its location. It has to be a comma-separated file with 3 columns, and a header row.

The output directory where the results will be saved. You have to use absolute paths to storage on Cloud infrastructure.

type: string

Less common options for the pipeline, typically set in a config file.

Display version and exit.

hidden
type: boolean

Boolean whether to validate parameters against the schema at runtime

hidden
type: boolean
default: true

Suffix to add to the trace report filename. Default is the date and time in the format yyyy-MM-dd_HH-mm-ss.

hidden
type: string