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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.

K-Dense-AI/claude-scientific-skills Agent Skills author: K-Dense-AI MIT 8 files body ≈ 3 547 tokens Open the sourcegithub.com↗ analyzed 12 h ago

Builds, runs, and debugs Nextflow DSL2 pipelines and nf-core workflows.

As a process C 60/100 · Has gaps — weak spots: result and completion, inputs and preconditions, running it twice

ProcedureDockerInfrastructureSoftware developmenttype and topics are labelled automatically from the skill text
Runs in: Claude / Claude Code ChatGPT / Codex Gemini CLI Cursor GitHub Copilot / VS Code Qwen Code Kimi Code CLI Z.ai (GLM) DeepSeek (Deep Code) Mistral Vibe LangChain (deepagents) OpenClaw Goose OpenCode
JSON
Technical rating
A
96/100
safety, quality, tests
Safety 60%
100
Quality 40%
89
Run on models
none yet
Process rating
C
60/100
Has gaps
Result and completion w 14
0
Inputs and preconditions w 11
0
Running it twice w 4
30
the three weakest of ten parameters · all ten

How to improve

    For the model run — optional
    • Your own cases (evals/evals.json, 4–6 real requests with expected answers): the full check would then run those instead of a model-drafted suite.
    • A spec.yaml with trigger phrases and assertions — a behaviour contract for CI; `skilltest init` writes a template.

    Guard findings · 0

    ✓ No critical or high findings

    Files scanned: 8. Evidence is masked. Grey chips explain why severity was lowered.

    Against the Agent Skills spec

    • note edit-residue the text marks something as outdated (lines 125, 180): check that old rules are not kept next to new ones — the full check reads the text for contradictions

    Process rating: all ten parameters 60/100

    • 0Result and completion. Does not say what the result is
    • 0Inputs and preconditions. Does not say what the process needs to start
    • 30Running it twice. 16 mutating operations with no state check
    • 50Failures and branches. 0 branches, has a failure section
    • 60Tools and files. Uses tools (bash, web) that frontmatter does not declare
    • 100Steps. 35 steps
    • 100When it triggers. States when to use and when not to
    • 100Consistency. Name and required fields are in place
    • 100Execution cost. Instruction body is 3547 tokens
    • 100Progress reporting. Reports progress
    • low 11 top-level sections: this looks like several domains in one skill
    • low The response is described with custom markup (9 tags): a typed call is more reliable

    Everything here is measured from the skill text rather than judged by a model, so the numbers are checkable. A parameter weighs more when it is a more common reason for the process to stall.

    Quality signals

    • +5Description has no quoted example phrases that should trigger the skill
    • +4Description does not say when NOT to use the skill (false activations)
    • +3Output format is not stated: the model decides each time
    • +2Single-language instructions
    • +3Description length 307: enough signal without eating the budget
    • +4Structure: 14 headings
    • +3Step-by-step instructions: 35 items
    • +4Has examples (5 code blocks)
    • +4Reference files are cited in the instructions (7 of 7)
    • +1License stated

    Quality base 70; lint remarks subtract, signals add up to 100. Result: 89.