Phytest

Phytest: Quality Control for Phylogenetic Analyses.

Phytest is a tool for automating quality control checks on sequence, tree and metadata files during phylogenetic analyses. Phytest ensures that phylogenetic analyses meet user-defined quality control tests.

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Documentation: https://phytest-devs.github.io/phytest

Code: https://github.com/phytest-devs/phytest

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Contents

• Quickstart
  • Installation
  • Quick Start
• Installation
• Writing Tests
  • Phytest fixtures
  • Built-in asserts
  • Custom asserts
• Running Tests
  • Phytest CLI
  • Phytest Module
  • Pytest Plugin
• Examples
  • Nextstrain Example
  • Temporal Signal Example
  • Continuous Testing Example
• API Reference
  • Sequence
  • Alignment
  • Tree
  • Data
• Development
• Citation

Indices and tables

• Index

• Module Index

• Search Page