intro

An AI agent for interacting with mathematical models of biological systems. BioModels is a database of such models, and you can also upload your own.

In plain words
What is it for?
Use it to ask questions about models, run forward simulations, change model settings, and inspect the results.
Why use it?
It helps people explore biological simulations without needing to write code or understand all the underlying mathematics.

Agent

Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

agentmods
npx agentmods add agents/virtualpatientengine/aiagents4pharma/intro
Clone the repo
git clone --depth 1 https://github.com/VirtualPatientEngine/AIAgents4Pharma
Per session 0 Only the description is in the session, so the agent can decide to use it. The body loads when it is invoked.
When invoked 239 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 0 findings. Scan, not verified.
Origin original No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5 $0.00000 $0.00239
Opus 5 $0.00000 $0.00120
Sonnet 5 $0.00000 $0.00048
Haiku 4.5 $0.00000 $0.00024

Measured 2d ago against content hash b8aed5bf8170, method: parsed. Prices are Anthropic first-party input rates as of 2026-08-30, from the pricing page.

Security

Grade A, and why

intro scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 2d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

docs/talk2cells/agents/intro.md · 22 lines

What it actually says

Talk2BioModels

Talk2BioModels is an AI-agent designed to interact with mathematical models in systems biology. You can choose to either interact with a model available in the BioModels database or upload your own model.


Why Talk2BioModels?

Biological models are critical for understanding complex biological mechanisms, yet they often remain inaccessible to those without a programming or mathematical background. Talk2BioModels bridges this gap by offering:

  • Natural Language Interaction: Simulate or ask questions to mathematical models directly.
  • Streamlined Simulations: Forward simulation of both internal and open-source models (e.g., BioModels database).
  • Dynamic Adjustments: Modify model parameters to simulate diverse conditions.
  • Powerful Queries: Effortlessly retrieve and analyze simulation results.

How to access Talk2BioModels?

There are 2 ways to access Talk2BioModels:

  • Set up the Streamlit app: Follow the instructions on the home page to set up an launch the Streamlit app.
  • Use the PyPI package: Follow the tutorial for step-by-step guidance on how to use the PyPI package.
Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 2d ago First seen · 22 lines · 0 tokens per session scan A b8aed5bf8170

Subscribe to this mod's changes

intro is an agent published in the GitHub repository VirtualPatientEngine/AIAgents4Pharma (98 stars, last pushed 5mo ago), licensed MIT. It costs nothing until one of its globs matches a file; then it loads 239 tokens. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.