nextflow

Run computational pipelines. Mostly used for bioinformatics workflows. More information: https://www.nextflow.io.

• Run a pipeline, use cached results from previous runs:

nextflow run main.nf -resume

• Run a specific release of a remote workflow from GitHub:

nextflow run user/repo -revision release_tag

• Run with a given work directory for intermediate files, save execution report:

nextflow run workflow -work-dir path/to/directory -with-report report.html

• Show details of previous runs in current directory:

nextflow log

• Remove cache and intermediate files for a specific run:

nextflow clean -force run_name

• List all downloaded projects:

nextflow list

• Pull the latest version of a remote workflow from Bitbucket:

nextflow pull user/repo -hub bitbucket

• Update Nextflow:

nextflow self-update