𝔽ind the class notes here […] Notice that the estimated effect size divided by the standard error behaves like a normal(0,1) random variable when the sample size is large enough: […] \[ Z = \frac{\hat\beta}{\text{se}(\hat\beta)}\] \[Z \approx N(0,1) ~~~~~~ \text{as } n \rightarrow … Read more →

𝕚f(!file.exists(glue::glue("~/Downloads/analysis_population_structure.tgz"))) { system(glue::glue("wget -O ~/Downloads/analysis_population_structure.tgz https://uchicago.box.com/shared/static/zv1jyevq01mt130ishx25sgb1agdu8lj.tgz")) ## tar -xf file_name.tar.gz --directory … Read more →

ℙroblem Set #1 Due on January 22nd by 1:50 pm Please email your pset answers to me (emcintire@uchicago.edu) with last week’s lab answers together as a single PDF. […] (10 points) Early onset Alzheimer’s disease is very rare; for illustrative purposes, assume it is 0.1% among adults aged … Read more →

𝕋hese papers can be good choices for the final presentations […] Sinnott-Armstrong, Nasa, FinnGen, Yosuke Tanigawa, David Amar, Nina Mars, Christian Benner, Matthew Aguirre, et al. 2021. “Genetics of 35 Blood and Urine Biomarkers in the UK Biobank.” Nature Genetics. … Read more →

𝕀n draft folder Gentle introduction to hypothesis testing from Kahn Academy A drug effect example of hypothesis testing and p-values from Kahn Academy Read more →

## simulate two independent, normally distributed random variables X and epsi ## set seed to make simulations reproducible set.seed(20210108) ## parameter definition nsamp = 100 beta = 2 h2 = 0.1 sig2X = h2 sig2epsi = (1 - sig2X) * beta^2 sigX = sqrt(sig2X) sigepsi = sqrt(sig2epsi) ## simulate … Read more →

𝕊ee the full vignette here ## simulate two independent, normally distributed random variables X and epsi ## set seed to make simulations reproducible set.seed(20210108) ## parameter definition nsamp = 100 beta = 2 h2 = 0.6 sig2X = h2 sig2epsi = (1 - sig2X) * beta^2 sigX = sqrt(sig2X) sigepsi = … Read more →

ℂreated by Max Winston, modified by Charles Washington III, Ankeeta Shah, Yanyu Liang, and Erik McIntire This lab section is dedicated to learning how to download HapMap data and manipulate the appropriate files in a command-line program named PLINK. Additionally, in R we will import data files and … Read more →

𝕎elcome to the Introduction to Statistical Genetics 2021 class! We look forward to meeting you all and sharing with you some of the fascinating topics in the field of human complex trait genetics. We hope you are all staying well during this difficult time. To better prepare everyone for remote … Read more →

ℝ Markdown is a authoring framework that allows for reproducible documentation of data science within the context of R Studio. This is an introduction designed to teach you how to use R Markdown in a few minutes. Further info and some of the examples used below can be found here: … Read more →