semvec/pypi-packages huggingface dataset:
limix 3.0.4
Genetic analysis toolbox using mixed models
License: MIT
Keywords: association,glmm,lmm,genetics

# limix

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Genomic analyses require flexible models that can be adapted to the needs of the user.

Limix is a flexible and efficient linear mixed model library with interfaces to Python.
It includes methods for

- Single-variant association and interaction testing
- Variance decompostion analysis with linear mixed models
- Association and interaction set tests
- Different utils for statistical analysis, basic i/o, and plotting.

We have an extensive [documentation](https://limix.readthedocs.io) of the library.
If you need further help or want to discuss anything related to limix, please, join our [forum](https://forum.limix.io/) �� and have a chat with us ��.
In case you have found a bug, please, report it creating an [issue](https://github.com/limix/limix/issues/new).

## Install

> **NOTE**: We will be maintaining limix 2.0.x for a while, in case you find some
> missing feature in limix 3.0.x. If that is the case, please, type `pip install "limix <3,>=2"` in your terminal.

Installation is easy and works on macOS, Linux, and Windows:

```bash
pip install limix
```

If you already have Limix but want to upgrade it to the latest version:

```bash
pip install limix --upgrade
```

## Interactive tutorials

- [eQTL](https://mybinder.org/v2/gh/limix/limix-tutorials/master?filepath=eQTL.ipynb) (requires limix 2.0.x)
- [Struct-LMM](https://mybinder.org/v2/gh/limix/limix-tutorials/master?filepath=struct-lmm.ipynb) (requires limix 2.0.x)

## Running tests

After installation, you can test it

```bash
python -c "import limix; limix.test()"
```

as long as you have [pytest](https://docs.pytest.org/en/latest/).

## Authors

* [Christoph Lippert](https://github.com/clippert)
* [Danilo Horta](https://github.com/horta)
* [Francesco Paolo Casale](https://github.com/fpcasale)
* [Oliver Stegle](https://github.com/ostegle)

## License

This project is licensed under the [Apache License License](https://raw.githubusercontent.com/limix/limix/2.0.0/LICENSE.md).