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LIMIX

What is LIMIX?

LIMIX is a flexible and efficient linear mixed model library with interfaces to Python. Limix is currently mainly developed by

Franceso Paolo Casale (casale@ebi.ac.uk) Danilo Horta (horta@ebi.ac.uk) Christoph Lippert (christoph.a.lippert@gmail.com) Oliver Stegle (stegle@ebi.ac.uk)

Philosophy

Genomic analyses require flexible models that can be adapted to the needs of the user. LIMIX is smart about how particular models are fitted to save computational cost.

Installation:

  • It is recommended to install LIMIX via pypi.
  • pip install limix will work on most systems.
  • LIMIX is especially easy to install with the anaconda python distribution: https://store.continuum.io/cshop/anaconda.

Here are the requirementss to want to install LIMIX from source:

  • Python:

    • scipy, numpy, pandas, cython

  • Swig:

    • swig 2.0 or higher (only required if you need to recompile C++ interfaces)

How to use LIMIX?

A good starting point is our package Vignettes. These tutorials are available from this repository: https://github.com/PMBio/limix-tutorials.

The main package vignette can also be viewed using the ipython notebook viewer: http://nbviewer.ipython.org/github/pmbio/limix-tutorials/blob/master/index.ipynb.

Alternatively, the source file is available in the separate LIMIX tutorial repository: https://github.com/PMBio/limix-tutorials

Problems ?

If you want to use LIMIX and encounter any issues, please contact us by email: limix@mixed-models.org

License

See [LICENSE] https://github.com/PMBio/limix/blob/master/license.txt