Intro To Categorical Code

This is an RStudio project that uses the bookdown R package to make booklet with some of the formulas, tables and code for Alan Agresti's Introduction to Categorical Data Analysis 3rd Edition.

To build the booklet

1. Download all the files
2. Open the IntroToCategoricalCode.Rproj file with R Studio
3. Install the extra packages used to help the aesthetics of the booklet:

extra <- c("rmarkdown", "bookdown", conflicted", "tidyverse", "kableExtra", 
   "ggthemes", "RColorBrewer", "officer", "flextable", "igraph")

install.packages(extra)

4. Install the packages used in the book itself:
   • The code below uses the order of appearance of analysis packages. You want to install all of them or at least all of the earlier chapters.
   • detectseparation is a new package since the 3rd edition
   • the last two lines are used to install a package that is not on CRAN:

chapter1 <- c("binom", "exactci", "PropCIs")
chapter2 <- c("epitools", "gmodels", "vcd", "vcdExtra")
chapter3 <- c("gam", "car", "statmod")
chapter4 <- c("mfx", "pROC", "plotROC")
chapter5 <- c("MASS", "leaps", "bestglm", "profileModel", "detectseparation"
              "MCMCpack", "logistf")
chapter6 <- c("VGAM")
chapter8 <- c("gee", "multgee", "psych")
chapter9 <- c("geepack")
chapter10 <- c("lme4", "poLCA")
chapter11 <- c("rpart", "rpart.plot", "gplots", "glmnet")

install.packages(c(chapter1, chapter2, chapter3, chapter4, chapter5, chapter6,
  chapter7, chapter8, chapter9, chapter10, chapter11))

if (!requireNamespace("devtools")) install.packages("devtools")
devtools::install_github("tjmckinley/BayesOrd")

5. Push the Build Book button (on the Build Tab) in the upper right window pane.
   • If you don't see the build Tab restart R Studio.

Chapter 99

Chapter 99 contains Ray's cheetsheet for R Markdown.

The file called ocAME.R

This repository contain a function called ocAME which Ray extracted from http://users.stat.ufl.edu/~aa/articles/agresti_tarantola_appendix.pdf.