Metadata-Version: 2.4
Name: itaxotools-taxi2
Version: 2.2.1
Summary: Calculation and analysis of pairwise sequence distances
Author-email: Stefanos Patmanidis <stefanpatman91@gmail.com>, Vladimir Kharchev <necrosovereign@gmail.com>
Project-URL: Homepage, https://itaxotools.org/
Project-URL: Source, https://github.com/iTaxoTools/TaxI2
Classifier: License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+)
Classifier: Development Status :: 5 - Production/Stable
Classifier: Programming Language :: Python
Classifier: Programming Language :: Python :: 3.10
Classifier: Programming Language :: Python :: 3.11
Classifier: Programming Language :: Python :: 3.12
Classifier: Programming Language :: Python :: 3.13
Classifier: Programming Language :: Python :: Implementation :: CPython
Requires-Python: <4,>=3.10.2
Description-Content-Type: text/markdown
License-File: LICENSE
Requires-Dist: itaxotools-common
Requires-Dist: itaxotools-spart-parser
Requires-Dist: itaxotools-calculate-distances
Requires-Dist: BioPython>=1.84
Requires-Dist: alfpy
Requires-Dist: numpy
Requires-Dist: openpyxl
Requires-Dist: pandas
Requires-Dist: seaborn
Provides-Extra: dev
Requires-Dist: setuptools-scm; extra == "dev"
Requires-Dist: pre-commit; extra == "dev"
Requires-Dist: ruff; extra == "dev"
Requires-Dist: pytest; extra == "dev"
Requires-Dist: pytest-cov; extra == "dev"
Requires-Dist: coverage; extra == "dev"
Dynamic: license-file

# TaxI2

[![PyPI - Version](https://img.shields.io/pypi/v/itaxotools-taxi2?color=tomato)](
    https://pypi.org/project/itaxotools-taxi2)
[![PyPI - Python Version](https://img.shields.io/pypi/pyversions/itaxotools-taxi2)](
    https://pypi.org/project/itaxotools-taxi2)
[![GitHub - Tests](https://img.shields.io/github/actions/workflow/status/iTaxoTools/TaxI2/test.yml?label=tests)](
    https://github.com/iTaxoTools/TaxI2/actions/workflows/test.yml)

Calculate genetic differences between DNA sequences,

This is a computational backend. For the GUI application, please visit
[TaxIGui](https://github.com/iTaxoTools/TaxIGui).


## Installation

TaxI2 is available on PyPI. You can install it through `pip`:

```
pip install itaxotools-taxi2
```

## Executables

Download and run the standalone executables without installing Python from [the latest TaxIGui release page](
    https://github.com/iTaxoTools/TaxIGui/releases/latest).

For users seeking the legacy application (v2.0.0), you may find it [here](
    https://github.com/iTaxoTools/TaxI2/releases/tag/v2.0.0).

[![Release](https://img.shields.io/badge/release-taxi_2.2.1-tomato?style=for-the-badge)](
    https://github.com/iTaxoTools/TaxIGui/releases/v0.2.4)
[![Windows](https://img.shields.io/badge/Windows-blue.svg?style=for-the-badge&logo=data:image/svg+xml;base64,PD94bWwgdmVyc2lvbj0iMS4wIiBlbmNvZGluZz0iVVRGLTgiPz4KPCEtLSBDcmVhdGVkIHdpdGggSW5rc2NhcGUgKGh0dHA6Ly93d3cuaW5rc2NhcGUub3JnLykgLS0+Cjxzdmcgd2lkdGg9IjQ4IiBoZWlnaHQ9IjQ4IiB2ZXJzaW9uPSIxLjEiIHZpZXdCb3g9IjAgMCAxMi43IDEyLjciIHhtbG5zPSJodHRwOi8vd3d3LnczLm9yZy8yMDAwL3N2ZyI+CiA8ZyBmaWxsPSIjZmZmIiBzdHJva2UtbGluZWNhcD0ic3F1YXJlIiBzdHJva2Utd2lkdGg9IjMuMTc0OSI+CiAgPHJlY3QgeD0iLjc5MzczIiB5PSIuNzkzNzMiIHdpZHRoPSI1LjAyNyIgaGVpZ2h0PSI1LjAyNyIvPgogIDxyZWN0IHg9IjcuMTQzNiIgeT0iLjc5MzczIiB3aWR0aD0iNC43NjI0IiBoZWlnaHQ9IjUuMDI3Ii8+CiAgPHJlY3QgeD0iLjc5MzczIiB5PSI2Ljg3OSIgd2lkdGg9IjUuMDI3IiBoZWlnaHQ9IjUuMDI3Ii8+CiAgPHJlY3QgeD0iNy4xNDM2IiB5PSI2Ljg3OSIgd2lkdGg9IjQuNzYyNCIgaGVpZ2h0PSI1LjAyNyIvPgogPC9nPgo8L3N2Zz4K)](
    https://github.com/iTaxoTools/TaxIGui/releases/download/v0.2.4/TaxI2.2.1-windows-x64.exe)
[![MacOS](https://img.shields.io/badge/macOS-slategray.svg?style=for-the-badge&logo=apple)](
    https://github.com/iTaxoTools/TaxIGui/releases/download/v0.2.4/TaxI2.2.1-macos-universal2.dmg)

## Python API
A new API is exposed with the latest backend. See [scripts](scripts) and [tests](tests) for some examples.
