hcmv-resist

Python CLI for HCMV antiviral resistance mutation detection and gB genotyping via NGS amplicon sequencing.

Implements the pipeline from:

Arnedo-Muñoz et al. (2025). A New Next-Generation Sequencing Approach in Human Cytomegalovirus for the Identification of Antiviral Resistance Mutations and Genotypic Classification. J Med Virol. 97:e70523. PMID: 40736009

Architecture

This project follows Git Flow:

Branch	Purpose
main	Stable releases only
develop	Active development, feature integration
feature/*	Individual features (branched from develop)
release/*	Release preparation (branched from develop)
hotfix/*	Critical fixes to main

All code, CI, tests, and documentation live on develop.

Quick Start

See the develop branch for:

• Full documentation and README
• Source code and CLI reference
• Installation instructions (conda/pip)
• CI/CD configuration
• Test suite

Installation

# Via conda (Forgejo)
micromamba install -c https://git.reslate.solutions/api/packages/ross/conda hcmv-resist

# Via pip (Forgejo)
pip install hcmv-resist --index-url https://git.reslate.solutions/api/packages/ross/pypi/simple

License

MIT License — see LICENSE