https://github.com/Imageomics/TaxonoPy

A Python package for efficiently aligning organismal taxonomic hierarchies using the Global Names Verifier
https://github.com/Imageomics/TaxonoPy

alignment hierarchy taxonomic-resolution taxonomy tree-of-life

Last synced: 3 months ago
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A Python package for efficiently aligning organismal taxonomic hierarchies using the Global Names Verifier

• Host: GitHub
• URL: https://github.com/Imageomics/TaxonoPy
• Owner: Imageomics
• License: mit
• Created: 2024-04-19T15:37:30.000Z (about 2 years ago)
• Default Branch: main
• Last Pushed: 2026-03-31T14:40:58.000Z (3 months ago)
• Last Synced: 2026-04-06T09:08:37.421Z (3 months ago)
• Topics: alignment, hierarchy, taxonomic-resolution, taxonomy, tree-of-life
• Language: Python
• Homepage: https://imageomics.github.io/TaxonoPy/
• Size: 1.27 MB
• Stars: 14
• Watchers: 5
• Forks: 0
• Open Issues: 14
• Metadata Files:
  • Readme: README.md
  • License: LICENSE
  • Citation: CITATION.cff
  • Zenodo: .zenodo.json
  • Agents: AGENTS.md

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• open-sustainable-technology - TaxonoPy - A Python package for efficiently aligning organismal taxonomic hierarchies using the Global Names Verifier. (Biosphere / Biodiversity Analysis and Metrics)

README

          


  



[![DOI](https://zenodo.org/badge/789041700.svg)](https://doi.org/10.5281/zenodo.15499454)

[![PyPI - Version](https://img.shields.io/pypi/v/taxonopy.svg)](https://pypi.org/project/taxonopy)

[![PyPI - Python Version](https://img.shields.io/pypi/pyversions/taxonopy.svg)](https://pypi.org/project/taxonopy)

## TaxonoPy: Reproducible, Traceable, and Scalable Biological Taxonomy Alignment

TaxonoPy (taxon-o-pie) is a command-line tool for harmonizing large biodiversity datasets into a consistent taxonomy ready for AI applications. Built on the [Global Names Verifier (GNVerifier)](https://github.com/gnames/gnverifier), it provides complete provenance tracking, flexible resolution strategies, and batch processing of 100M+ records to address challenges in reproducibility and scale in massive multi-source taxonomy alignment.

## Documentaion

See https://imageomics.github.io/TaxonoPy for documentation on installation, usage, and more.

## Development

See the [Wiki Development Page](https://github.com/Imageomics/TaxonoPy/wiki/Development) for development instructions.