fsl-tool skillA
fsl-tool is agent-read markdown (skill) from cuhk-aim-group/neurodiscovery: Use this skill whenever the user wants to process neuroimaging data with FSL (FMRIB Software Library), covering structural MRI, functional MRI (fMRI), and diffusion MRI (dMRI/DTI). Triggers include: 'use FSL', 'FSL processing', 'fsl_anat', 'FEAT', 'MELODIC', 'eddy', 'bedpostx', 'probtrackx', 'BET', 'FAST', 'FLIRT', 'FNIRT', 'run FSL pipeline'. This skill is the NeuroClaw interface-layer wrapper for FSL: checks installation, generates execution plan with concrete shell commands, waits for explici.
Indexed from public GitHub and served as immutable, content-addressed versions. Install it pinned to an exact SHA-256 with the mdr CLI, and every file is verified against the hash recorded here before it reaches your agent. The deterministic audit below grades the latest version, and the same file always earns the same grade.
What the file says
# FSL Tool ## Overview FSL is a comprehensive library of analysis tools for MRI, fMRI, and diffusion brain imaging. This skill provides a safe, unified interface for the three core modalities in NeuroClaw: - Structural MRI (T1w, T2w, FLAIR) - Functional MRI (task-based and resting-state) - Diffusion MRI (DTI / dMRI) **Workflow**: 1. Check if FSL is installed (`fslversion`). 2. If not installed → call `dependency-planner` to generate installation plan. 3. Analyze input files and propose concrete shell commands with parameter explanations. 4. Present full numbered plan + estimated time + risks. 5. Wait for explicit user confirmation (“YES”, “execute”, “proceed”). 6. Execute all commands safely via `claw-shell`. 7. Summarize outputs and suggest next steps. **Research use only.** ## Core Modalities and Common Shell Commands ### 1. Structural MRI ```bash # One-click structural preprocessing (strongly recommended) fsl_anat -i T1w.nii.gz -o T1w_anat --clobber # -i : input T1w file # -o : output folder name # --clobber : overwrite existing files (commonly used) # Brain extraction (BET) bet T1w.nii.gz T1w_brain -m -f 0.5 # -m : output brain mask (_mask.nii.gz) …
Read the whole file at its exact version.
How to install
mdr add cuhk-aim-group/neurodiscovery/fsl-tool@git:20260505.e9ddd22mdr add cuhk-aim-group/neurodiscovery/fsl-tool@sha256:1ccc8daeb5d1b010Pin to a label to follow the author's releases, or to a sha256 to freeze the exact bytes forever. Either way the resolved hash is written to mdr.lock, and mdr install reproduces it on any machine.
[](https://markdownregistry.com/a/art_7ayel3jiu7dhugkf)
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Versions
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260505.e9ddd22 latest | 2026-05-05 | e9ddd22 | 8,055 B | A | view · diff |
| git:20260404.fa7f354 | 2026-04-04 | fa7f354 | 7,998 B | A | view · diff |
| git:20260328.891ed93 | 2026-03-28 | 891ed93 | 6,460 B | A | view · diff |
| git:20260325.72d2cbf | 2026-03-25 | 72d2cbf | 6,549 B | A | view · diff |
| git:20260325.6f1b393 | 2026-03-25 | 6f1b393 | 7,529 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (8055 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
cuhk-aim-group/neurodiscovery · 91 stars · license MIT · pushed 2026-09-22 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_7ayel3jiu7dhugkf GET https://markdownregistry.com/api/v1/resolve?ref=cuhk-aim-group/neurodiscovery/fsl-tool GET https://markdownregistry.com/api/v1/blob/1ccc8daeb5d1b01053bb39a1e112474b3f8af40596c52a113f6970611bdeacd3
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