IQSS vignette now in inst/iqssDemo as Libertinus not universal

inst/iqssDemo/iqssDemo.Rmd

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+---
+author: Ista Zahn and Gary King
+classoption: compress
+fontsize: 12pt
+title: IQSS Beamer Class Demonstration
+date: \today
+institute: IQSS 
+output: binb::iqss
+vignette: >
+  %\VignetteIndexEntry{binb IQSS Demo}
+  %\VignetteKeywords{binb,vignette}
+  %\VignettePackage{binb}
+  %\VignetteEngine{knitr::rmarkdown}
+---
+
+
+# Beamer Features
+
+## Some of Gary's Examples
+
+### What's this course about? 
+
+
+::: incremental 
+
+- \alert{Specific statistical methods for many research problems}
+      - How to learn (or create) new methods
+      - Inference: \underline{Using facts you know to learn about
+        facts you don't know}
+- \alert{How to write a publishable scholarly paper}
+- \alert{All the practical tools of research} --- theory,
+    applications, simulation, programming, word processing, plumbing,
+    whatever is useful
+- $\leadsto$ \alert{Outline and class materials:}
+    - \mbox{{\huge\parbox[b][.5in][t]{1in}{\alert{j.mp/G2001}}}
+        $\qquad\qquad$\includegraphics[width=.95in]{figs/phbAr.png}}
+    - The syllabus gives topics, not a weekly plan.
+    - We will go as fast as possible subject to everyone following along
+    - We cover different amounts of material each week
+
+:::
+
+### How much math will you scare us with?
+
+- All math requires two parts: \alertb{proof} and \alertb{concepts \& intuition}
+- Different classes emphasize:
+    - \alert{Baby Stats}: dumbed down proofs, vague intuition
+    - \alert{Math Stats}: rigorous mathematical proofs
+    - \alert{\underline{Practical Stats}}: deep concepts and intuition, proofs when needed
+        - Goal: how to do empirical research, in depth
+        - Use rigorous statistical theory --- when needed
+        - Insure we understand the intuition --- always
+        - Always traverse from theoretical foundations to practical applications
+        - Includes ``how to'' computation
+        - $\leadsto$ Fewer proofs, more concepts, better practical knowledge
+- Do you have the background for this class? 
+
+. . .
+
+\alert{A Test: What's this?
+    \begin{align*}
+      b=(X'X)^{-1}X'y
+    \end{align*} }
+
+
+### Systematic Components: Examples
+
+\includegraphics[width=8cm]{figs/functionalForms}
+
+- \alertb{$E(Y_i) \equiv \mu_i = X_i\beta = \beta_0 +
+      \beta_1X_{1i} +\dots+\beta_kX_{ki}$}
+- \alertc{$\Pr(Y_i=1) \equiv \pi_i =
+      \frac{1}{1+e^{-x_i\beta}}$}
+- \alertd{$V(Y_i)\equiv \sigma_i^2 = e^{x_i\beta}$}
+- Interpretation:
+    - Each is a \alert{class of functional forms}
+    - Set $\beta$ and it picks out one \alert{member of the class}
+    - \alert{$\beta$} in each is an ``effect parameter'' vector,
+      with different meaning
+
+
+### Negative Binomial Derivation
+
+\uncover<+->{Recall:}
+
+\begin{equation*}
+    \uncover<+->{\Pr(A|B)=\frac{\Pr(AB)}{\Pr(B)} \implies 
+        \alertb{\Pr(AB)}=\alerte{\Pr(A|B)}\alertd{\Pr(B)}}
+\end{equation*}
+
+\alertb<1-1>{one}
+\alertc<2-2>{two}
+\alertd<3-3>{three}
+
+\begin{align*}
+  \uncover<+->{\text{NegBin}(y|\phi,\sigma^2) &= \int_0^\infty
+    \alerte{\text{Poisson}(y|\lambda)}
+    \times\alertd{\text{gamma}(\lambda|\phi,\sigma^2)}d\lambda\\}
+  \uncover<+->{&= \int_0^\infty
+    \alertb{\P(y,\lambda|\phi,\sigma^2) }d\lambda\\}
+  \uncover<+->{&=
+    \frac{\Gamma\left(\frac{\phi}{\sigma^2-1}+y_i\right)}
+    {y_i!\Gamma\left(\frac{\phi}{\sigma^2-1}\right)}
+    \left(\frac{\sigma^2-1}{\sigma^2}\right)^{y_i}
+    \left(\sigma^2\right)^{\frac{-\phi}{\sigma^2-1}}}
+\end{align*}
+
+
+# Other Features
+
+## Structural Features
+
+### Structural Features
+
+#### Levels of Structure
+
+- usual \LaTeX\ \textbackslash\ section, \textbackslash\ subsection commands
+- `frame` environments provide slides
+- `block` environments divide slides into logical sections
+- `columns` environments divide slides vertically (example later)
+- overlays (\`a la prosper) change content of slides dynamically
+  
+#### \alertc{Overlay Alerts}
+
+On the first overlay, \alert<1>{this text} is highlighted (or \emph{alerted}).  
+On the second, \alert<2>{this text} is. 
+
+
+### Code blocks
+
+\footnotesize
+
+```r
+# Say hello in R
+hello <- function(name) paste("hello", name)
+```
+ 
+. . .
+
+```python
+# Say hello in Python
+def hello(name):
+return("Hello" + " " + name)
+```
+
+. . .
+
+```haskell
+-- Say hello in Haskell
+hello name = "Hello" ++ " " ++ name
+```
+
+. . .
+
+```c
+/* Say hello in C */
+#include <stdio.h>
+int main()
+{
+  char name[256];
+  fgets(name, sizeof(name), stdin);
+  printf("Hello %s", name);
+  return(0);
+}
+```
+
+\normalsize
+
+
+### Alerts
+
+- First level \alert{alert}
+- Second level \alertb{alert}
+- Third level \alertc{alert}
+- Fourth level \alertd{alert}
+- Fifth level \alerte{alert}
+
+# More Features 
+
+## Blocks
+
+### Other Features
+
+#### Levels of Structure
+
+- Clean, extensively customizable visual style
+- Hyperlinks ([http://github.com/izahn/iqss-beamer-theme](click here_) 
+- No weird scaling prosper
+    - slides are 96~mm~$\times$~128~mm
+    - text is 10-12pt on slide
+    - slide itself magnified with Adobe Reader/xpdf/gv to fill screen
+- pgf graphics framework easy to use
+- include external JPEG/PNG/PDF figures
+- output directly to pdf: no PostScript hurdles
+- detailed User's Manual (with good presentation advice, too)
+
+
+### Theorems and Proofs
+\framesubtitle{The proof uses \textit{reductio ad absurdum}.}
+
+#### Theorem
+There is no largest prime number.
+
+#### Proof
+> - Suppose $p$ were the largest prime number.
+> - Let $q$ be the product of the first $p$ numbers.
+> - Then $q+1$ is not divisible by any of them.
+> - But $q + 1$ is greater than $1$, thus divisible by some prime
+    number not in the first $p$ numbers. \qedhere
+
+### Blocks
+
+#### Normal block
+A \alert{set} consists of elements.
+
+
+#### \alert{Alert block}
+$2=2$.
+
+#### \alertc{Example block}
+The set $\{1,2,3,5\}$ has four elements.
+
+
+# Appendix
+
+---
+
+Backup Slides
+
+<!-- \subsection{More stuff} -->
+
+---
+
+Details
+
+---
+
+Text omitted in main talk.
+
+<!-- \subsection{Even more additional material} -->
+
+---
+
+More details
+
+---
+
+Even more details