# BioModelling

> Use this tool when you need to analyze and simulate complex biological systems, solve problems in systems biology and cellular behavior, and integrate computational modeling into your workflow. BioModelling provides a suite of computational biology tools, including Boolean and stochastic modeling, network analysis, and agent-based cell simulation, with inputs including biological model data and outputs including simulation results. It is ideal for use cases involving simulation management, data processing, and systems biology research.

Canonical page: https://skillsregistry.net/skills/gh-marcorusc-biomodelling  
JSON: https://api.skillsregistry.net/v1/skills/gh-marcorusc-biomodelling

## Description

BioModelling provides MCP servers for three computational biology tools: MaBoSS for Boolean and stochastic modeling, NeKo for systems biology network analysis, and PhysiCell for agent-based cell simulation. Each server enables AI assistants to run simulations, manage modeling sessions, and process biological model data. Available via PyPI and conda.

## Trust

- **Trust score (0–1):** 0.84
- **Verification tier:** verified
- **Last scanned:** 2026-09-19

## Facts

- **Version:** 1.0.0
- **Skill type:** atomic
- **Execution layer:** mcp-remote
- **Runtime environment:** api
- **Category:** other
- **Updated:** 2026-09-19

## Source

- **Source listing:** [PulseMCP](https://www.pulsemcp.com/servers/gh-marcorusc-biomodelling)
- **Repository:** <https://github.com/marcorusc/mcp-biomodelling-servers>

## Use it

Resolve this record through the SkillsRegistry MCP server (no auth, read-only):

```
claude mcp add --transport http --scope user skillsregistry https://api.skillsregistry.net/mcp
```

```json
{
  "jsonrpc": "2.0",
  "id": 1,
  "method": "tools/call",
  "params": {
    "name": "get_skill",
    "arguments": {
      "slug": "gh-marcorusc-biomodelling"
    }
  }
}
```

REST: `GET https://api.skillsregistry.net/v1/skills/gh-marcorusc-biomodelling` · pull for local use: `GET https://api.skillsregistry.net/v1/skills/gh-marcorusc-biomodelling/pull`

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