Quantitative Genomics and Genetics, Spring 2018

Lab 1 - Notes , Data

• R basics

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Lab 2 - Notes

• R Markdown
• Functions
• For loops
• If/else statements
• Vector and Matrix calculation

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Lab 3 - Notes

• Plotting
• Functions related to the normal distribution

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Lab 4 - Notes

• Boolean data type
• More on vector elements
• Graphing using ggplot2

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Lab 5 - Notes

• Random numbers

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Lab 6 - Notes , Genotype , Phenotype

• Handling genotype data

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Lab 7 - Notes , Data Files

• Manhattan plot
• Mini eQTL analysis with real data

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Lab 8 - Notes

• QQ plot
• PCA

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Lab 9 - Notes , Data Files

• Logistic regression
• IRLS algorithm

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Lab 10 - Notes , Data Files

• Mixed models

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Lab 11 - Notes , Data Files

• Modeling with covariates

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Lab 12 - Notes

• Bayesian Inference with Markov Chain Monte Carlo Methods