# basic_grn_inference

> This script demonstrates the standard workflow for inferring gene regulatory networks from expression data using GRNBoost2.

- Source: https://doutorai.pt/en/components/skills__basic-grn-inference
- Type: Skills
- Category: Scientific
- Downloads: 0
- Site: Doutor AI (https://doutorai.pt/en) - AI tools for small businesses

An open-source community component, curated and adapted by Doutor AI.

## What it does and how to use it

A **skill** that teaches Claude Code to do scientific tasks well. It is packaged knowledge the model uses whenever it is relevant.

1. Install the skill (command above).
2. In Claude Code, describe what you need - the skill turns on by itself when the context fits.
3. No commands to memorize: you talk in plain language and the skill does the rest.

## Install (Claude Code)

```bash
mkdir -p .claude/skills/basic-grn-inference && curl -fsSL https://doutorai.pt/data/lib/skills__basic-grn-inference.md -o .claude/skills/basic-grn-inference/SKILL.md
```

Paste this command into the terminal, in your project folder, and the component installs automatically.

## Content

```
#!/usr/bin/env python3
"""
Basic GRN inference example using Arboreto.

This script demonstrates the standard workflow for inferring gene regulatory
networks from expression data using GRNBoost2.

Usage:
    python basic_grn_inference.py <expression_file> <output_file> [--tf-file TF_FILE] [--seed SEED]

Arguments:
    expression_file: Path to expression matrix (TSV format, genes as columns)
    output_file: Path for output network (TSV format)
    --tf-file: Optional path to transcription factors file (one per line)
    --seed: Random seed for reproducibility (default: 777)
"""

import argpars

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```

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Content by Doutor AI (https://doutorai.pt/en). When quoting, please cite the source: https://doutorai.pt/en/components/skills__basic-grn-inference