nextflow

Tool for running 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