AF single-cell-rnaseq-pipeline
Generate single-cell RNA-seq analysis code templates for Seurat and Scanpy, supporting QC, clustering, visualization, and downstream analysis. Trigger when users need scRNA-seq analysis pipelines, preprocessing workflows, or batch correction code.
As a process F 65/100 · Will not run — References files that are not bundled: references/seurat_template.R
AnalyzerInfrastructureSoftware developmenttype and topics are labelled automatically from the skill text
How to improve
- For Hermes the description must be one sentence under 60 characters; move the conditions to a "When to Use" section.
- The text references files that are not there: add them or drop the references.
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: 7. Evidence is masked. Grey chips explain why severity was lowered.
Against the Agent Skills spec
- warning
description-long-hermesdescription is 247 chars; the Hermes authoring standard requires ≤ 60 (one sentence, ending with a period) - warning
missing-refreference to a missing file: references/seurat_template.R - note
frontmatter-keyunknown frontmatter key "status" - note
frontmatter-keyunknown frontmatter key "risk_level" - note
frontmatter-keyunknown frontmatter key "skill_type" - note
frontmatter-keyunknown frontmatter key "owner" - note
frontmatter-keyunknown frontmatter key "reviewer" - note
frontmatter-keyunknown frontmatter key "last_updated"
Process rating: all ten parameters 65/100
Will not run. References files that are not bundled: references/seurat_template.R
- 0Tools and files. 1 referenced file(s) missing: references/seurat_template.R
- 50Failures and branches. 0 branches, has a failure section
- 60Result and completion. Output format stated, no completion criterion
- 70When it triggers. States when to use, but not when not to
- 70Inputs and preconditions. Inputs and preconditions are listed
- 100Steps. 69 steps
- 100Consistency. Name and required fields are in place
- 100Execution cost. Instruction body is 2247 tokens
- 100Running it twice. No mutating operations
- 100Progress reporting. Reports progress
- medium Safety rules and hard prohibitions inside a skill: they belong in the system prompt, here they protect nothing
- low 18 top-level sections: this looks like several domains in one skill
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)
- +2Single-language instructions
- +3Description length 247: enough signal without eating the budget
- +4Structure: 35 headings
- +3Step-by-step instructions: 69 items
- +3Output format is stated explicitly
- +4Has examples (11 code blocks)
- +4Reference files are cited in the instructions (2 of 2)
- +3All 1 scripts are documented
- +1License stated
Quality base 70; lint remarks subtract, signals add up to 100. Result: 80.
External checks
ClawHub: clean
This skill is a straightforward local generator for single-cell RNA-seq analysis templates, with no evidence of hidden data access, credential use, persistence, or exfiltration.
LLM: benign (high) · VirusTotal: · 29 May 2026