A flexible and fast mixed model toolbox written in C++/python
Project description
# LIMIX
## What is LIMIX?
LIMIX is a flexible and efficient linear mixed model library with interfaces to Python and other scripting languages.
By Christoph Lippert (lippert@microsoft.com),
Franceso Paolo Casale (casale@ebi.ac.uk), and 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 fit to safe computational cost.
## Installation:
* Recommended is an installation via pypi.
* pip install limix will work on most systems.
* If you want to install LIMIX from source you require:
Python:
- scons, scipy, numpy
* Swig:
- swig 2.0 or higher
## How to use LIMIX?
A good starting point is our package Vignettes. These tutorials can are available in 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/tutorial_yeast.ipynb or by downloading the PDF equivalent: https://github.com/PMBio/limix-tutorials/blob/master/tutorial_yeast.pdf.
More extensive documentation will be available soon.
## 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
## What is LIMIX?
LIMIX is a flexible and efficient linear mixed model library with interfaces to Python and other scripting languages.
By Christoph Lippert (lippert@microsoft.com),
Franceso Paolo Casale (casale@ebi.ac.uk), and 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 fit to safe computational cost.
## Installation:
* Recommended is an installation via pypi.
* pip install limix will work on most systems.
* If you want to install LIMIX from source you require:
Python:
- scons, scipy, numpy
* Swig:
- swig 2.0 or higher
## How to use LIMIX?
A good starting point is our package Vignettes. These tutorials can are available in 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/tutorial_yeast.ipynb or by downloading the PDF equivalent: https://github.com/PMBio/limix-tutorials/blob/master/tutorial_yeast.pdf.
More extensive documentation will be available soon.
## 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