A flexible and fast mixed model toolbox.
Project description
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.
Limix includes methods for - single-variant association and interaction testing, - variance decompostion analysis with linear mixed models, - association and interaction set tests, - as well as different utils for statistical analysis, basic i/o and plotting.
A description of the public interface is found at https://limix.readthedocs.io/.
iPython notebook tutorials are available from github repository: https://github.com/limix/limix-tutorials.
These tutorials can also be viewed using the ipython notebook viewer: http://nbviewer.ipython.org/github/limix/limix-tutorials/blob/master/index.ipynb.
Highlights
iSet: an interaction set test with external context (paper) (public interface) (tutorial)
mtSet: an efficient multi-trait set test (paper) (public interface) (tutorial)
Install
The recommended way of installing it is via pip
pip install limix
Problems
If you encounter any issue, please, submit it.
License
This project is licensed under the Apache License (Version 2.0, January 2004) - see the LICENSE file for details
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