https://github.com/timeu/gwas-lecture
Lectures on Genome Wide Association Studies (GWAS) using Python, Limix and Jupyter Noteboos
https://github.com/timeu/gwas-lecture
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Lectures on Genome Wide Association Studies (GWAS) using Python, Limix and Jupyter Noteboos
- Host: GitHub
- URL: https://github.com/timeu/gwas-lecture
- Owner: timeu
- Created: 2018-11-03T14:44:48.000Z (over 7 years ago)
- Default Branch: master
- Last Pushed: 2020-11-20T14:17:27.000Z (over 5 years ago)
- Last Synced: 2025-04-10T19:49:25.720Z (over 1 year ago)
- Language: Jupyter Notebook
- Size: 46.6 MB
- Stars: 33
- Watchers: 2
- Forks: 15
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
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README
Lectures on Genome Wide Association Studies (GWAS) with Limix, Python and Jupyter Notebooks
============================================
[](https://mybinder.org/v2/gh/timeu/gwas-lecture/master)
A set of lectures on Genome Wide Association Studies (GWAS) with Limix, Python and Jupyter Notebooks. The notebooks are heavily based on the original [limix tutorial notebooks](http://nbviewer.ipython.org/github/limix/limix-tutorials/blob/master/index.ipynb) but adapted to work with the latest stable Limix 1.x release.
To open these notebooks in Jupyter, download the files to a directory on your computer and from that directory run (for installation of the necessary software packages see [Lecture-0 Setup of Python Environment](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-0-Setup-of-Python-Environment.ipynb)):
$ jupyter notebook
Online read-only versions
=========================
Use the following links:
0. [Lecture 0 - Setup of Python Environment](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-0-Setup-of-Python-Environment.ipynb)
1. [Lecture 1 - Introduction to Jupyter Notebooks](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-1-Introduction-to-Jupyter-Notebooks.ipynb)
2. [Lecture 2 - Introduction to Python-Programming](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-2-Introduction-to-Python-Programming.ipynb)
3. [Lecture 3 - Introduction to Numpy](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-3-Introduction-to-Numpy.ipynb)
4. [Lecture 4 - Matplotlib](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-4-Matplotlib.ipynb)
5. [Lecture 5 - HDF5 h5py PyTables](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-5-HDF5-h5py-PyTables.ipynb)
6. [Lecture 6 - Linear Regression ](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-6-Linear-Regression.ipynb)
7. [Lecture 7 - Linear Mixed Model](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-7-Linear-Mixed-Model.ipynb)
8. [Lecture 8 - Multi Trait Linear Mixed Model](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-8-Multi-Trait-Linear-Mixed-Model.ipynb)
9. [Lecture 9 - Estimating (SNP) narrow-sense heritability](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-9-SNPHeritability.ipynb)
10. [Lecture 10 - Estimating (SNP) broade-sense heritability](http://nbviewer.ipython.org/urls/raw.github.com/timeu/gwas-lecture/master/Lecture-10-BroadSenseHeritability.ipynb)
License
=======
This work is licensed under a [Creative Commons Attribution 3.0 Unported License.](http://creativecommons.org/licenses/by/3.0/)