conn-tool
Use this skill whenever the user wants to perform advanced functional connectivity (ROI-to-ROI, seed-to-voxel, ICA) or effective connectivity (PPI, gPPI, DCM) analysis using the CONN Toolbox. Triggers include: 'conn', 'CONN toolbox', 'functional connectivity', 'effective connectivity', 'ROI-to-ROI', 'seed-to-voxel', 'PPI', 'gPPI', 'DCM', 'psychophysiological interaction', or any request for connectivity analysis after preprocessing.
npx skills add BioTender-max/awesome-bio-agent-skills --skill conn-tool --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.
# CONN Tool ## Overview CONN is a MATLAB/SPM-based toolbox for comprehensive functional and effective connectivity analysis. It excels at ROI-to-ROI, seed-to-voxel, ICA-based network analysis, and psychophysiological interaction (PPI/gPPI) as well as Dynamic Causal Modeling (DCM). This skill serves as the **NeuroClaw interface-layer wrapper** for the CONN Toolbox and strictly follows the hierarchical design: 1. Check whether CONN Toolbox and dependencies (MATLAB + SPM) are installed. 2. If missing → invoke `dependency-planner` to generate a safe installation plan. 3. Verify input data (typically preprocessed BOLD from `fmriprep-tool` or `hcppipeline-tool`). 4. Generate a clear, numbered execution plan with exact commands, project setup, and analysis steps. 5. Present the plan and wait for explicit user confirmation (“YES” / “execute” / “proceed”). 6. On confirmation → delegate the entire CONN project setup and analysis to `claw-shell`. 7. After completion, summarize connectivity matrices, statistical maps, and suggest next steps (e.g., visualization or `paper-writing`). **Research use only.** ## Quick Reference | Task | What needs to be done | Delegate to which tool skill | Expecte
- Overview
- Quick Reference
- Common Shell Command Examples
- Installation (Handled by dependency-planner)
- Benchmark Adapter Guidance
- NeuroClaw recommended wrapper script
- Important Notes & Limitations
- When to Call This Skill
- Complementary / Related Skills
- Reference
- Post-Execution Verification (Harness Integration)
Launch CONN in MATLAB (typical usage)
matlab -nodisplay -nosplash -r "conn; conn_batch('conn_project.mat'); exit;"
matlab -batch "conn; disp('CONN version:'); conn('ver')"What does the conn-tool skill do?
Use this skill whenever the user wants to perform advanced functional connectivity (ROI-to-ROI, seed-to-voxel, ICA) or effective connectivity (PPI, gPPI, DCM) analysis using the CONN Toolbox. Triggers include: 'conn', 'CONN toolbox', 'functional connectivity', 'effective connectivity', 'ROI-to-ROI', 'seed-to-voxel', 'PPI', 'gPPI', 'DCM', 'psychophysiological interaction', or any request for connectivity analysis after preprocessing.
How do I install it?
Run `npx skills add BioTender-max/awesome-bio-agent-skills --skill conn-tool --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.