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BC pathml

Supports local computational pathology research with PathML: slide loading and tiling, preprocessing and QC, h5path storage, multiplex quantification, spatial graphs, and bounded model inference. Use for whole-slide H&E, CODEX, Vectra, Mesmer, HoVer-Net, and HACTNet workflows.

K-Dense-AI/claude-scientific-skills Agent Skills author: K-Dense-AI MIT 13 files · 6 scripts body ≈ 3 069 tokens Open the sourcegithub.com↗ analyzed 13 h ago

Supports local computational pathology research with PathML: slide loading and tiling, preprocessing and QC, h5path storage, multiplex quantification, spatial…

As a process C 64/100 · Has gaps — weak spots: result and completion, failures and branches, running it twice

ProcedureSoftware developmentAI and agentstype 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
B
92/100
safety, quality, tests
Safety 60%
94
Quality 40%
89
Run on models
none yet
Process rating
C
64/100
Has gaps
Result and completion w 14
0
Failures and branches w 10
0
Running it twice w 4
30
the three weakest of ten parameters · all ten

What is at stake

Medium-severity findings: the skill is probably honest, but read what alarmed the scanner.

Broad scope medium severity

Below is the worst case for this category. The finding here is medium: the guard saw a sign, not a proof.

If you install

The skill asks for more than the task needs: broad tool access, credential environment variables, binaries. Every extra permission widens the damage from a mistake or a compromise.

For the author

Narrow allowed-tools and the variable list to the minimum; replace binaries with readable sources or scripts.

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 · 2

    ✓ No critical or high findings

    Medium and low: 2
    • medium Broad scope meta-broad-allowed-tools SKILL.md:1
      Broad tool permissions pre-approved: Bash
      allowed-tools: Read Write Edit Bash Glob
    • low Concealment en-hide-from-user references/multiparametric.md:188
      Instruction to hide actions from the user (negated — the text forbids it)
      Do not silently install an unpinned DeepCell stack or assume compatibility with
      negated

    Files scanned: 13. 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 30, 167): check that old rules are not kept next to new ones — the full check reads the text for contradictions

    Process rating: all ten parameters 64/100

    • 0Result and completion. Does not say what the result is
    • 0Failures and branches. Linear process with no failure handling
    • 30Running it twice. 6 mutating operations with no state check
    • 50When it triggers. No condition that starts the skill
    • 70Inputs and preconditions. Inputs and preconditions are listed
    • 100Tools and files. Tools declared in frontmatter
    • 100Steps. 38 steps
    • 100Consistency. Name and required fields are in place
    • 100Execution cost. Instruction body is 3069 tokens
    • 100Progress reporting. Reports progress
    • medium Safety rules and hard prohibitions inside a skill: they belong in the system prompt, here they protect nothing
    • low 11 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)
    • -31 of 6 scripts are never mentioned in SKILL.md
    • +2Single-language instructions
    • +3Description length 277: enough signal without eating the budget
    • +4Structure: 12 headings
    • +3Step-by-step instructions: 38 items
    • +3Output format is stated explicitly
    • +4Has examples (5 code blocks)
    • +4Reference files are cited in the instructions (6 of 6)
    • +1License stated

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