Home / cuhk-aim-group / neurodiscovery · GitHub

harmonization-tool SKILL.md skillA

harmonization-tool from cuhk-aim-group/neurodiscovery is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.

Install it, pinned

mdr add cuhk-aim-group/neurodiscovery/harmonization-tool@git:20260523.efa9db2

Pins git:20260523.efa9db2 in mdr.lock. Pin the fingerprint instead.

Audit grade: A, 17 of 17 checks passed
Kind: SKILL.md skill
Repository: cuhk-aim-group/neurodiscovery
Path: skills/harmonization-tool/SKILL.md
Versions recorded: 1
Latest version: git:20260523.efa9db2, committed May 23, 2026
Size: 14,966 bytes
Repository stars: 93
License: MIT

Use this skill whenever the user wants to remove site/scanner/batch effects from neuroimaging features before running downstream models, run mega-analysis across multiple datasets, or evaluate models with leave-site-out / site-stratified protocols. Triggers include: 'harmonize', 'ComBat', 'CovBat', 'site effect', 'scanner effect', 'batch effect', 'leave-site-out', 'mega-analysis', 'multi-site', 'cross-site', 'neuroHarmonize'. This is a horizontal cross-cutting layer between dataset skills and…

Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.

What the file says

# Harmonization Tool Skill (Cross-Site Feature Alignment Layer)

## Overview
`harmonization-tool` is the NeuroClaw cross-cutting layer that sits **between** dataset skills (ABIDE, ADHD-200, ABCD, HCP, UKB, ...) and model skills (BrainGNN, BNT, IBGNN, LGGNN, BrainNetCNN, FM-APP, SVM, SpaceNet, ...).

Its job: take subject-level features extracted by dataset skills and remove **technical / batch variance** introduced by site, scanner, field strength, sequence, or dataset, while **preserving biological variance** (age, sex, diagnosis, ...).

This is the prerequisite for any honest **mega-analysis** that pools individual-participant data (IPD) across sites or datasets.

This skill follows NeuroClaw hierarchy:
- Defines **WHAT to do**, not low-level implementation details.
- Does **not** execute direct shell commands itself.
- Delegates all execution via `claw-shell`.

**Research use only.**

---

## When to Use This Skill

Trigger this skill when the user asks for any of:
- "harmonize features across sites / scanners / datasets"
- "ComBat / ComBat-GAM / CovBat / neuroHarmonize / neuroCombat"
- "remove site effect / scanner effect / batch effect"
…

Read the whole file at its exact version.

How to install

The exact contents, by fingerprint

mdr add cuhk-aim-group/neurodiscovery/harmonization-tool@sha256:0b5800d4e097de9d

The line at the top of this page pins the label git:20260523.efa9db2, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.

Badge

[![mdr](https://markdownregistry.com/badge/art_vqctohcv2iom7jzq.svg)](https://markdownregistry.com/a/art_vqctohcv2iom7jzq)

3 badge image fetches in 30 days. What the badge shows.

Versions

The registry has recorded 1 version of this file, committed on May 23, 2026.

version	committed	commit	size	audit
git:20260523.efa9db2 latest	2026-05-23	efa9db2	14,966 B	A	view

Audit of the latest version

A 17 of 17 checks passed. Fixed automatic checks with no AI involved, so the same checks give the same answer every run.

pass: Frontmatter block present
pass: Frontmatter declares a name
pass: Frontmatter declares a description
pass: Size between 200 bytes and 200 KB (14966 bytes)
pass: No zero-width or bidi control characters
pass: No instruction hidden inside an HTML comment
pass: No link to an exfiltration or paste host
pass: No credential-shaped string
pass: No instruction to send local credentials anywhere
pass: No text hidden with inline styles
pass: No prompt-injection phrasing
pass: No curl or wget piped into a shell
pass: No recursive delete of root, home or parent
pass: No instruction to read or print local credentials
pass: No base64 blob over 200 characters
pass: No link to a raw IP address
pass: No script tag

Source

GitHub

cuhk-aim-group/neurodiscovery · 93 stars · license MIT · pushed 2026-10-23 · branch main

API

GET https://markdownregistry.com/api/v1/artifacts/art_vqctohcv2iom7jzq
GET https://markdownregistry.com/api/v1/resolve?ref=cuhk-aim-group/neurodiscovery/harmonization-tool
GET https://markdownregistry.com/api/v1/blob/0b5800d4e097de9d9cae232fced0a315fa76f5e478e23c25f911336456098855

Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.

Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.