Tutorial Examples

These notebooks are rendered as documentation chapters without execution. Existing notebook outputs are preserved where available.

Core Examples

• Basic Bioscrape Examples
• Advanced Examples and Developer Overview
• Benchmarking Bioscrape Performance
• Fast Statistics for SSA Trajectories
• Sensitivity Analysis Using Bioscrape

Inference Examples

• Bioscrape Inference: Getting Started
• Parameter Inference: Model with Delays
• Least squares fit using LMFit and Bioscrape
• OD Data Using Least Squares
• Birth-death Model Inference
• Linear Model Inference
• Multiple-measurement Inference
• Multiple Initial Conditions
• Multiple-trajectory Inference
• Priors in Bioscrape Inference
• Stochastic Inference

Lineage Examples

• Bioscrape Lineage Examples
• Interacting Lineages