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[default: BedLiftOver_pipeline]\n  --profile PROFILE     The default profile from the configuration to run the pipeline.\n                        This profile will be used unless a profile is specified in the\n                        process or in the .run method of pipen. You can check the available\n                        profiles by running `pipen profile`\n  --outdir OUTDIR       The output directory of the pipeline [default: ./\u003cname\u003e_results]\n  --forks FORKS         How many jobs to run simultaneously by the scheduler\n  --scheduler SCHEDULER\n                        The scheduler to run the jobs\n\nNamespace \u003cenvs\u003e:\n  --envs ENVS           Environment variables for the process [default: {'liftover':\n                        'liftOver', 'chain': ''}]\n  --envs.liftover LIFTOVER\n                        The path to liftOver [default: liftOver]\n  --envs.chain CHAIN    The map chain file for liftover [default: ]\n\nNamespace \u003cin\u003e:\n  --in.inbed INBED [INBED ...]\n                        The input BED file\n\nNamespace \u003cout\u003e:\n  --out.outbed OUTBED   The output BED file [default: {{in.inbed | basename}}]\n\nOptions:\n  -h, --help, -h+, --help+\n                        show help message (with + to show more options) and exit\n```\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpwwang%2Fbiopipen","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fpwwang%2Fbiopipen","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fpwwang%2Fbiopipen/lists"}