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    "\n",
    "### A.L. Rae Centre Workshop on Genomic Prediction and Genome-Wide Association Studies\n",
    "\n",
    "### November 9-13, 2015\n",
    "\n",
    "### Coachman Hotel, Palmerston North, New Zealand\n",
    "\n",
    "\n",
    "### Course Instructors:\n",
    "* Dorian Garrick\n",
    "* Rohan Fernando\n",
    "\n",
    "\n",
    "### Topics Covered:\n",
    "*\tStatistical, quantitative genetic, and computational aspects of genomic prediction.\n",
    "*\tGenome-wide association studies using genomic prediction methods\n",
    "*\tJulia scripts for genomic prediction and GWAS\n",
    "\n",
    "\n",
    "### Prerequisites:        \n",
    "* Graduate-level course in quantitative genetics.\n",
    "* Graduate-level course in statistics.\n",
    "* Basic understanding of concepts in QTL mapping, linkage, linkage disequilibrium and computer programming."
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    "### Notes:\n",
    "\n",
    "* Day 1:\n",
    " * [Introduction to Genomic Prediction](Slides/Introduction.pdf)\n",
    " * [Simple Linear Models](Slides/Simple_Linear_Models.pdf)\n",
    " * Simulation of data using Julia \n",
    " ([notebook](JupyterNoteBooks/dataSimulation.ipynb), [slides](JupyterNoteBooks/dataSimulation.slides.html))\n",
    "* Day 2: \n",
    " * [Monte-Carlo Integration](JupyterNoteBooks/MonteCarlo.ipynb)\n",
    " * Bayes' Theorem\n",
    " ([notebook](JupyterNoteBooks/BayesTheorem.ipynb),[slides](JupyterNoteBooks/BayesTheorem.slides.html))\n",
    " * [Introduction to MCMC Sampling](JupyterNoteBooks/MonteCarlo.ipynb#mcmc)\n",
    " * [Interactive Plot of Gibbs and MH Samplers](JupyterNoteBooks/interactive_MH_Gibbs.ipynb)\n",
    " * [Introduction to MCMC](JupyterNoteBooks/MonteCarlo.ipynb#mcmc)\n",
    "* Day 3:\n",
    " * [Linear Regression Script: Inefficient](JuliaScripts/InefficientLinearRegressionMCMCwithknownResVar.jl.txt)\n",
    " * [Linear Regression Script: Efficient](JuliaScripts/LinearRegressionMCMCwithknownResVar.jl)\n",
    " * [Linear Regression Script: Unknown Variance](JuliaScripts/LinearRegressionMCMCwithUnknownResVar.jl)\n",
    " * [Bayesian Inference](JupyterNoteBooks/BayesInference.ipynb)\n",
    " * [Bayesian Inference by Application to Simple Linear Regression](JupyterNoteBooks/BayesSimpleLinear.ipynb)\n",
    " * [Bayesian Simple Linear Regression: Solutions](JupyterNoteBooks/BayesSimpleLinearHW.ipynb)\n",
    " * [Pedigree-based Mixed Linear Models](Slides/PedigreeBLUP.pdf)\n",
    " * [Problem 1](HWProblems/Problem1.pdf)\n",
    " * [BLUP Example](JuliaScripts/BLUPexample.jl)\n",
    " "
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    "### Julia Tutorial:\n",
    "\n",
    "* [Learn X in Y minutes](http://learnxinyminutes.com/docs/julia/)\n",
    "* [Introduction to Julia for Statistical Genetics](http://reworkhow.github.io/JuliaGenBook/)\n",
    "* [Package Management](http://nbviewer.ipython.org/github/reworkhow/GPW2015/blob/master/notes/Pkg.ipynb)"
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