Examples

This section contains detailed examples of using StochasticGene.jl for various analysis scenarios.

Basic Examples

RNA Count Analysis

• Basic Telegraph Model: Fitting a simple two-state model to RNA count data
• Multi-State Model: Fitting a model with multiple gene states
• RNA Histogram Analysis: Analyzing RNA count distributions

Live Cell Imaging

• MS2 Reporter Analysis: Analyzing MS2 reporter data
• Dual Reporter System: Working with multiple reporters
• Trace Analysis: Analyzing time series data

Dwell Time Analysis

• Basic Dwell Times: Analyzing basic dwell time distributions
• RNA Dwell Time Analysis: Advanced dwell time analysis
• RNA On-Off Analysis: Analyzing gene state transitions

Advanced Examples

Parallel Processing

• Parallel Processing: Using parallel processing for large datasets

Hierarchical Models

• Hierarchical Trace Analysis: Analyzing trace data with hierarchical models

Joint Analysis

• Joint Trace Analysis: Analyzing multiple reporters simultaneously

Coupled Models

• Coupled Model Analysis: Analyzing coupled gene expression models

Contributing Examples

We welcome contributions of new examples! If you have an interesting use case or analysis workflow, please consider sharing it with the community. See the Contributing guide for more information.