# Arboreto (agent skill)

> Arboreto is an agent skill (a SKILL.md file) from K-Dense-AI/scientific-agent-skills. Infers candidate gene regulatory networks from bulk or single-cell expression data using AertsLab Arboreto GRNBoost2 and GENIE3. It works with Claude Code, Codex, Cursor, Gemini CLI and GitHub Copilot and has 47,813 GitHub stars across a repository of 7 listed skills.

Infers candidate gene regulatory networks from bulk or single-cell expression data using AertsLab Arboreto GRNBoost2 and GENIE3. Use for transcription factor-target association ranking, compatible Dask execution, sparse expression inputs, and network stability checks. Use Arboreto to rank candidate regulator-target associations from expression measurements. GRNBoost2 fits stochastic gradient boosting regressions; GENIE3 fits random forests.

## Key facts

| Fact | Value |
|---|---|
| Repository | https://github.com/K-Dense-AI/scientific-agent-skills |
| Skill path | skills/arboreto/SKILL.md |
| Skill name | arboreto |
| GitHub stars | 47,813 |
| Installs on skills.sh | not listed |
| License | MIT |
| Skills in repo | 7 |
| Plugin marketplace | no |
| Official | no |
| Works with | Claude Code, Codex, Cursor, Gemini CLI, GitHub Copilot |
| Category | Data & analysis |
| Last commit | Oct 5, 2026 |

## When it triggers

- Use for transcription factor-target association ranking, compatible Dask execution, sparse expression inputs, and network stability checks.

## Add this skill

### Claude Code

```sh
git clone --depth 1 https://github.com/K-Dense-AI/scientific-agent-skills.git
cp -r scientific-agent-skills/skills/arboreto ~/.claude/skills/arboreto   # personal, or .claude/skills in a project
```

In the Claude apps, zip the skill folder and upload it under Customize > Skills > + > Upload a skill (code execution must be on).

### ChatGPT / Codex

```sh
git clone --depth 1 https://github.com/K-Dense-AI/scientific-agent-skills.git
cp -r scientific-agent-skills/skills/arboreto .agents/skills/arboreto   # repo; ~/.agents/skills for all projects
```

### Cursor

```sh
git clone --depth 1 https://github.com/K-Dense-AI/scientific-agent-skills.git
cp -r scientific-agent-skills/skills/arboreto .cursor/skills/arboreto   # project; ~/.cursor/skills for all projects
```

Sources (checked 2026-10-07): https://code.claude.com/docs/en/skills, https://support.claude.com/en/articles/12512180-using-skills-in-claude, https://learn.chatgpt.com/docs/build-skills, https://cursor.com/docs/context/skills

---

Canonical page: https://appsgit.com/skills/k-dense-ai-arboreto
Source: appsgit (https://appsgit.com), the app store for github. Data from the GitHub API, refreshed nightly.
Machine access: JSON API https://appsgit.com/api/v1/apps (OpenAPI: https://appsgit.com/openapi.json), MCP server https://mcp.appsgit.com/mcp, full index https://appsgit.com/llms-full.txt.