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nextflow

separate

Builds, runs, and debugs Nextflow DSL2 pipelines and nf-core workflows. Use for Nextflow, nf-core, .nf files, nextflow.config, processes/channels/operators, samplesheets, nf-test, modules/subworkflows, container and executor configuration, HPC/SLURM or cloud deployment, and failed or resumed pipeline runs.

When to use

• Run an nf-core or custom Nextflow pipeline, or debug a failing/resuming run.
• Write or modify `.nf` scripts, `nextflow.config`, profiles, or `nextflow_schema.json`.
• Author or test nf-core-style modules/subworkflows (`main.nf`, `meta.yml`, `tests/`, nf-test).
• Configure executors, containers, or resources; scale to HPC or cloud.
• Implement a scientific workflow in Nextflow or adapt an existing nf-core pipeline.
• Understand processes, channels, operators, `take`/`emit`, `publishDir`, `ext.args`, meta maps.

Skill page

Source