aomic-skill
Use this skill whenever the user wants an end-to-end workflow for the AOMIC (Amsterdam Open MRI Collection) dataset, including data access, BIDS organization, and multimodal processing of sMRI, rs-fMRI, and task-fMRI. Triggers include: 'AOMIC', 'AOMIC data', 'process AOMIC', 'AOMIC fMRI', 'AOMIC resting state', or any request to run the AOMIC multimodal pipeline. This is the NeuroClaw dataset-orchestration layer for AOMIC.
npx skills add BioTender-max/awesome-bio-agent-skills --skill aomic-skill --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# AOMIC Skill (Dataset-Orchestration Layer) ## Overview `aomic-skill` is the NeuroClaw orchestration skill for the **AOMIC (Amsterdam Open MRI Collection)** dataset. It coordinates a fixed three-phase workflow: 1. Guide AOMIC data access and download from OpenNeuro / the AOMIC repository. 2. Prepare and validate BIDS-style data organization for downstream processing. 3. Delegate modality pipelines to `smri-skill` and `fmri-skill`. It also provides **phenotype extraction** and **QC integration** paths: - Extract and merge AOMIC phenotype tables (Big Five personality traits, fluid intelligence, demographics). - Generate per-subject QC summaries with exclusion lists. 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` to base/tool skills. **Research use only.** --- ## Download Stage (Mandatory First Step) ### Source AOMIC data is publicly available: - Website: https://nilab-uva.github.io/AOMIC.github.io/ - OpenNeuro derivatives: https://openneuro.org/ - Data access: direct download, no authentication required for most components ### Suppor
- Overview
- Download Stage (Mandatory First Step)
- Source
- Supported AOMIC Sub-datasets
- Delegation Rules for Download
- Download Inputs to Confirm in Plan
- Narrow Path: AOMIC Raw Data -> BIDS Staging
- When this narrow path should dominate
- Narrow-path contract
- Expected narrow-path behavior
- Core Workflow (Never Bypassed)
- Input Layout (Example)
- BIDS Preparation
- Script: scripts/reorganizeaomic.py
python skills/aomic-skill/scripts/reorganize_aomic.py \ python skills/aomic-skill/scripts/extract_aomic_phenotype.py \ python skills/aomic-skill/scripts/aomic_qc_summary.py \
What does the aomic-skill skill do?
Use this skill whenever the user wants an end-to-end workflow for the AOMIC (Amsterdam Open MRI Collection) dataset, including data access, BIDS organization, and multimodal processing of sMRI, rs-fMRI, and task-fMRI. Triggers include: 'AOMIC', 'AOMIC data', 'process AOMIC', 'AOMIC fMRI', 'AOMIC resting state', or any request to run the AOMIC multimodal pipeline. This is the NeuroClaw dataset-orchestration layer for AOMIC.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill aomic-skill --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From BioTender-max/awesome-bio-agent-skills, a repository with 135 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.