Changelog

All notable changes to MucOneUp will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

---

Unreleased

---

0.19.0 - 2025-10-20

Added

• MkDocs Material documentation system with GitHub Actions deployment
• Comprehensive user guides (simulation, toxic protein detection, SNaPshot validation)
• Auto-generated CLI documentation via mkdocs-click
• Dark/light mode toggle, instant search, mobile responsive design
• Professional documentation at https://berntpopp.github.io/MucOneUp/

---

0.15.0 - 2025-10-18

Added

• In silico SNaPshot assay validation for MUC1 dupC mutation

---

0.14.0 - 2025-10-15

Added

• Diploid split-simulation for ONT reads

Fixed

• ONT read simulation bias in diploid references

---

0.13.0 - 2025-10-10

Added

• Toxic protein detection algorithm
• ORF prediction with orfipy integration

---

Earlier Versions

See GitHub Releases for earlier version history.

---