AgentCell is a object-oriented model of a biological cell, implemented as a Python library. It provides a framework for simulating cellular processes and metabolic pathways.
- Simulates various cellular components and organelles
- Models metabolic pathways such as glycolysis and the Krebs cycle
- Implements energy production mechanisms (ATP synthesis)
- Provides a flexible and extensible architecture for cellular simulations
To install Pyology, you can use pip:
pip install pyologyHere's a basic example of how to use Pyology:
from pyology.cell import Cell
from pyology.simulation import Reporter, SimulationController
# Create a cell and simulation components
cell = Cell()
reporter = Reporter()
sim_controller = SimulationController(cell, reporter)
# Run a simulation with a specific amount of glucose
glucose_amount = 4
results = sim_controller.run_simulation(glucose_amount)
# Access and analyze the results
print(f"Final ATP: {results['final_cytoplasm_atp'] + results['final_mitochondrion_atp']:.2f}")For more detailed examples and usage instructions, please refer to the documentation.
Pyology includes the following main components:
- Cell
- Mitochondrion
- Cytoplasm
- Krebs Cycle
- Endoplasmic Reticulum
- Golgi Apparatus
- Cell Membrane
Each component is modeled to represent its biological counterpart and interact with other components in the simulation.
Contributions to Pyology are welcome! Please refer to the CONTRIBUTING.md file for guidelines on how to contribute to this project.
Pyology is released under the MIT License. See the LICENSE file for more details.
For questions, issues, or suggestions, please open an issue on the GitHub repository.