nextflow

K-Dense-AI/scientific-agent-skills

SkillLoads cleanly

Build, run, and debug Nextflow data pipelines and nf-core workflows end to end. Use whenever the user mentions Nextflow, nf-core, .nf files, nextflow.config,…

Scores
out of 100 · grade A+

2026-08-22

Works

40% of the score

100/100

Loads cleanly: valid frontmatter, required fields present, no dangling references.

Maintained

25% of the score

100/100

no commits in the last 12 weeks

Adopted

20% of the score

62/100

34,091 stars on the source repo.

Documented

15% of the score

90/100

1,466 words with worked examples.
Ships 7 bundled files.

Loads cleanly. Every structural check Claude Code needs to register this passed. Last commit 2 days ago.

Install

npx skills add K-Dense-AI/scientific-agent-skills/nextflow

What it says it does

Build, run, and debug Nextflow data pipelines and nf-core workflows end to end. Use whenever the user mentions Nextflow, nf-core, .nf files, nextflow.config, DSL2, processes/channels/operators, samplesheets, or wants to run a community pipeline (e.g. nf-core/rnaseq, nf-core/sarek), write or test a module/subworkflow with nf-test, configure executors/containers (Docker, Singularity/Apptainer, Conda, Wave), scale a workflow to HPC/SLURM or cloud (AWS Batch, Google Batch, Azure, Kubernetes), or debug a failed/-resume run. Make sure to use this skill for any reproducible scientific/bioinformatics workflow work even if the user does not say the word "Nextflow", and for authoring nf-core-compliant pipelines, modules, configs, and linting.

Every number above came out of reading the file and its repository. Nothing is a judgement call, nothing is a model’s opinion, and nothing can be paid for. The full method is published. Source last committed 2026-08-19.

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