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MATH-493
19 May - Deposit Prelim Report 3 (Individual)
logistic - comments A-C
logistic - comments A-C
Click
logistic-comments-A-C.pdf
link to view the file.
◄ logistic - prelim report
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R Markdown: The Definitive Guide
R Markdown lessons from R Studio
knitr with R Markdown - Karl Broman's website
Forum: Finding group members
Video Lecture 1a
Lecture 1a slides - Reproducible Research
Video Lecture 1b (from end of Prob-Stat I)
Lecture 1b slides - Hypothesis testing review
Power example
Lab 1 - EDA (exploratory data analysis)
Installing R and RStudio
Getting started with R/RStudio
TP 0
Q+A Week 1
Video Lecture 2a
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Lecture 2 slides
Lab 2a
Lab 2a - reponses to questions in class
Linear Models in R
Linear Statistical Models (MASS ch. 6)
Lab 2b (optional but strongly suggested - tutorial on R Markdown)
Q+A Week 2
Report 1 - Group / Data assignments
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Q+A Week 4
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Lecture 5 slides
Titanic example of logistic regression in R
Evaluating logistic regression models
Poisson regression in R
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Q + A Week 5
Study assessment questions
Video Lecture 6a
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Lecture 6 slides
R Data Camp survival analysis tutorial
Cox ph modeling in R
Q+A Week 6
My.stepwise R package
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pbc paper (survival)
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Discrete data analysis with R
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Additional comments labs 6+7
More on mosaic plots
Q+A Week 7
Categorical Data Analysis (A. Agresti, 2013)
Book by Michael Friendly
Survival criteria
Logistic criteria
GLM criteria
Discrete criteria
GWAS criteria
Video Lecture 8a (same as Statistical Genetics Lecture 4a)
Video Lecture 8b (same as Statistical Genetics Lecture 4b)
Video Lecture 8c
Lecture 8 slides
Lab 8a - PCA (OPTIONAL)
Food data
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GWAS-extras + data files
PCs in GWAS - Nature Genetics paper
PCs in GWAS - slide presentation
Manhattan plot with -log10p on y-axis
GWASTools BioConductor R package (data cleaning/qc tools, maybe interesting)
Other tutorial for SNPRelate (possibly interesting, completely optional)
SNPassoc paper (optional but maybe useful)
SNPassoc R package (contains functions for eigenstrat, Cochran-Armitage (trend) test, etc.)
Q+A week 8
R1
Comments - R1
R2
Comments - R2
A1
Comments - A1
A2
Comments - A2
Late prelim reports (any)
More late prelim reports (R1 / R2 / A1 / A2)
Lecture 9 slides (OPTIONAL)
Quick introduction to pwr package in R (OPTIONAL)
Lab 9 (OPTIONAL) - power tutorial
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Lab 11 (OPTIONAL)
Video Lecture 12a (OPTIONAL)
Video lecture 12b (OPTIONAL)
Lecture 12 slides (OPTIONAL)
Lab 12 (old lab 6) - OPTIONAL
Hierarchichal clustering in R
Heatmaps in R
Heatmaps in R - short tutorial
R graph gallery - heatmaps
survival - prelim report
survival - comments A-K
survival - comments L-Z
logistic - prelim report
logistic - comments D-K
logistic - comments L-P
logistic - comments Q-Z
glm - prelim report
GLM - comments
discrete - prelim report
discrete - comments
gwas - prelim report
GWAS - comments
LATE prelim reports - ANY
Late discrete comments
Late comments (all topics) - 26 June 2025
R1 final report
R2 final report
A1 final report
A2 final report
article L1
article L2
survival - final
logistic - final
glm - final
discrete - final
gwas - final
logistic - comments D-K ►
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