#!/usr/bin/env python
# coding: utf-8

# # Genotype to phenotpye mapping tutorials using LIMIX

# We here provide tutorials for common tasks in genotype to phenotye analysis, ranging from raw data processing to complex genetic analyses.

# # Table of Contents
# 
# 1. Preprocessing and Quality control
#     * [Loading data](preprocessing_QC/loading_files.ipynb)
#     * [Genotype Quality control](preprocessing_QC/genotype_QC.ipynb)
# 2. Linear regression and false discovery rates
#     * [Linear regression and multiple testing](linear_regression_FDR/QTL_mapping1.ipynb)
# 3. Linear mixed models and population structure
#     * [Linear mixed models, example applications](LMM_singletrait/LMM_example.ipynb)
#     * [Simulating GWAS data, population structure and step-wise association analysis](LMM_singletrait/LMM_simulation.ipynb)
# 4. Multiple trait analyses
#     * [Multitrait modelling, examples](LMM_multitrait/LMM_multitrait_example.ipynb)
# 5. eQTL mapping
#     * [Basic eQTL mapping and variance component modelling](eQTL/eQTL_basics.ipynb)
# 6. Multi-trait set test (mtSet)
#     * [Set test for joint analysis of multiple traits](mtSet/Multi_trait_set_test.ipynb)
# 7. Interaction set test (iSet)
#     * [Set tests for gene-context interactions](iSet/Interaction_set_test.ipynb)
# 8. Non linear mixed models
#     * [Mixed random forest](Mixed_RF/Mixed_RF_example.ipynb)

# In[ ]: