Course Materials: HGEN 619 [Spring 2011]

Topics for 2011 Spring Session

Website: OpenMx
Text: Methodology for Genetic Studies of Twins and Families by Neale & Cardon, 1992 revision.
Classic Mx Manual: Mx: Statistical Modeling by Neale, Boker, Xie & Maes, 2006.

DateLecture TopicLecturerNotes and Examples
Jan 18Chapter 1: Introduction to RHermine MaesRintroduction.R
PlayingWithR.R
Jan 25Chapter 2: Probability and Statistics ReviewMark ReimersStat Computing in R Demos
Feb 01Chapter 3: Methods for Generating Random VariablesHoa Wu / Lindon EavesStat Comp in R Chapter 3 Presentation
Chapter3 R Code
SimulateIRTdata Code
Geneticdrift R Code
Genetic Drift Slides (PDF)
Feb 08Chapter 4: Visualization of Multivariate DataElizabeth Prom-Wormley / WigelinStat Computing Graphing Class.R
StatCompinRvCards.csv
Traditional Graphics Reference.xls
bivgencorrsc22.txt
Mark’s R Code
FOLFAout.txt
Dr. Jacob Wegelin’s Website
Feb 15 & 17Review of Chapters 1-4Lindon Eaves / Michael NealeSimulateIRTdata R Code
Updated SimulateIRTdata R Code
Rasch R Code
Directory containing Dr. Mario Rizzo’s Online Scripts
Feb 22 & 24Chapter 5: Monte Carlo and Variance ReductionMark Reimers / Lindon EavesintroMonteCarloMethods.R R code
Network.R
Correct Network.R
Mar 01 & 03Chapter 6:Lindon Eaves / Elizabeth Prom-WormleyTwin inits.odc
Twin Data.odc
Twin Code.odc
Mean and SD Inits.odc
Mean and SD Data.odc
Mean and SD Code.odc
Introduction to MCMC and OpenBUGS.ppt
Instructions for Running BUGS.docx
Chapter 7:Silviu-Alin Bacanupermutation tests.txt
permutation tests correlated SNPs.txt
how.many.permutations.txt
generate.correlated.snp.genotypes.txt
more.delicate.permutations.txt
Apr 05 & 07Chapter 8:Lindon Eaves / Elizabeth Prom-WormleyMCMC.R
Mean and SD in R.R
Mean and SD in R.txt
Mean and SD Data.csv
Mean and SD Code.bug.R
rjags in Mac OSX
rjags.pdf
Batch twin and age effects code.txt
BUGS DHEA batchtwinage resid for JAGS.R
d_t1.csv
d_t2.txt
Installing BRugs Instructions for PC Users.docx
BUGS DHEA batchtwinage resid PC.R
Cortisol batch inits 1.txt
Cortisol batch inits 2.txt
Apr 12 & 14Chapter 10:Fazil AlievfazilChapter10.R
Apr 19 & 21Chapter 11:Ryne Estabrook / Hao WuNumerical Issues.pdf
Numerical Issues.R
Apr 26 & 28Chapter 12:Lindon EavesSNPSim.R
May 03Chapter 13:Mark Reimersshrinkage.r
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