Welcome to the markovmodus docs

markovmodus simulates single-cell unspliced/spliced RNA counts using a Markov-modulated hidden state graph. The sections below outline the core concepts and APIs.

Contents

• Introduction
  • Why build another simulator?
  • How it works
• Usage
  • Quick start
  • Advanced configuration
• API reference
  • Configuration
  • Simulation engine
  • Input/output
  • High-level API
• Changelog
  • Unreleased
  • 0.3.0 - 2026-06-15
  • 0.2.0 - 2026-04-30
  • 0.1.0 - 2025-10-23

Indices and tables

• Index

• Module Index

• Search Page