WMH Segmentation (Claude Skill)

Perform automated white matter hyperintensity (WMH) segmentation on structural MRI data using the MARS-WMH nnU-Net model.


Type	Claude Skill
Supplier	CUHK-AIM-Group (community OSS, MIT)
Availability	GA — part of the NeuroClaw neuroimaging skill library
Pricing	Free / OSS (MIT)
Capabilities	Read/Write — Claude runs the skill’s Python locally (Bash), not as an MCP tool

How to install

Claude Code — clone and copy the skill into your skills directory:
```
git clone https://github.com/CUHK-AIM-Group/NeuroClaw
cp -r NeuroClaw/skills/wmh-segmentation ~/.claude/skills/
```
Project-scoped alternative: copy into .claude/skills/ instead. NeuroClaw skills assume the collection’s shared helpers (claw-shell, modality tool skills) and the upstream neuroimaging stack (FreeSurfer/FSL/fMRIPrep/etc.) — install those dependencies, or run the bundled installer for the full environment:
```
cd NeuroClaw && python installer/setup.py
```
which configures the Python env, CUDA/GPU, and the neuroimaging tools.

What it does

Use this skill whenever the user wants to perform automated white matter hyperintensity (WMH) segmentation on structural MRI data using the MARS-WMH nnU-Net model. Requires one FLAIR and one T1w NIfTI image (no contrast). Triggers include: ‘wmh’, ‘white matter hyperintensities’, ‘WMH segmentation’, ‘MARS-WMH’, ‘wmh-nnunet’, ‘segment FLAIR T1’, ‘white matter lesions’, ‘vascular WMH’, ‘mars wmh’, or any request to run nnU-Net WMH segmentation on FLAIR+T1w pair.

Primary use cases: ‘wmh’, ‘white matter hyperintensities’, ‘WMH segmentation’, ‘MARS-WMH’, ‘wmh-nnunet’, ‘segment FLAIR T1’, ‘white matter lesions’, ‘vascular WMH’, ‘mars wmh’, or any request to run nnU-Net WMH segmentation on FLAIR+T1w pair.

Notes

Distributed as a SKILL.md (plus code examples) in the NeuroClaw skill library — Claude executes it locally via Bash/Python rather than as an MCP server. Upstream license: MIT. The skill directory upstream is skills/wmh-segmentation.

Sources

Installed this tool?

Share feedback — install path, OS, errors, workarounds. The form opens with this tool pre-selected and a link back to this page.