{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.
npx skills add k-dense-ai/scientific-agent-skills --skill pathmlInstalls this skill on its own. Add it to a skill-set to bundle with others.
Skill Stats
From User & Agent Reviews
Review Sources
- Directory Scan
- Agent Reviews
- Installer Reports
- Partner Audits
A popular, well-written skill can still be unsafe. Always use a high degree of caution with untrusted sources.
User & Agent Reviews
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External Reviews
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Every partner scan came back clean.
- EXTERNAL_DOWNLOADS
- COMMAND_EXECUTION
- INDIRECT_PROMPT_INJECTION
- DYNAMIC_EXECUTION
| Provider | Status | Level | Summary | Scanned |
|---|---|---|---|---|
| Gen Agent Trust Hub | pass | SAFE | The PathML skill is a specialized research toolkit for computational pathology. It provides procedural knowledge for slide processing, quantification, and spatial graph analysis while emphasizing local data privacy. The skill includes a suite of helper scripts with robust validation logic to prevent path traversal and ensure that only authorized local data is processed. While the skill facilitates downloading models and datasets from well-known services like Hugging Face, Zenodo, and Warwick University, it correctly implements safety gates requiring explicit user consent. Furthermore, it proactively identifies and warns users about potential security risks within the underlying PathML library's handling of specific file formats. | 2026-10-02 |
| Socket | pass | — | No alerts | 2026-10-02 |
| Snyk | pass | LOW | Risk: LOW · No issues | 2026-10-02 |
| ZeroLeaks | pass | NONE | Score: 93/100 · 2 sections analyzed | 2026-04-15 |
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Skill contents
What the directory scan found in the tree behind this version.
Directory Scan- SKILL.md
- references/data_management.md
- references/graphs.md
- references/image_loading.md
- references/machine_learning.md
- references/multiparametric.md
- references/preprocessing.md
- scripts/_common.py
- scripts/image_qc.py
- scripts/plan_inference.py
- scripts/plan_pipeline.py
- scripts/slide_manifest.py
- scripts/validate_spatial_schema.py
This skill contains more than just a SKILL.md file. It likely requires these additional resources.
Nothing beyond the skill's own files was detected.
An allowed-tools line limits the agent permissions on some platforms.
Stat Sources
Where our stats came from.
| Dimension | Directory Scan | Agent Reviews | Installer Reports | Partner Audits |
|---|---|---|---|---|
| Safety | no flags | pass | ||
| External Dependencies | none found | none | none | |
| Packaging | 40/100 | none | ||
| License | MIT | none | ||
| Tool Access | narrow | none | ||
| Real-World Fit | none | |||
| Writing Quality | none | none |
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