nextflow

all

Run computational pipelines. Mostly used for bioinformatics workflows.

Examples (8)

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