𝕋he genetic relatedness matrix (which can be used to calculate heritability and also to adjust for relatedness and population structure) encodes the structure of the data. To get an intuitive sense of how that works, do the following. […] (10 points) Calculate GRM of hapmap_chr22 data … Read more →

𝕋otal of 40 points Download hapmap3 data in plink format from https://uchicago.box.com/s/84de60jj4j9nyhl7nc7lylk4fcq12eka […] Hint: you can borrow code with the appropriate modifications from https://hgen471.hakyimlab.org/post/2021/02/18/l6-population-structure/ Read more →

ℕOTE: Go to this link Read more →

𝕀n this problem, you will simulate a binary outcome Y and genotype X for 100 individuals (nsamp) in 1000 scenarios (nsim). Set the minor allele frequency of X to be 0.30 (maf). Work on an R markdown document and turn in the html generated by knitting with R […] (10 pts.) For the first 100 … Read more →

𝕙ttps://uchicago.box.com/s/iqxg6yo7pi50hyudnfcv2xnhtfp6euv8 […] The genetic relatedness matrix (which can be used to calculate heritability and also to adjust for relatedness and population structure) encodes the structure of the data. To get an intuitive sense of how that works, let’s do the … 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 →