added examples, more talk, etc.

README.md

@@ -44,9 +44,24 @@ I sent out an online query about things that people might like me to cover:
 * "Best way of producing reproducible and visually appealing slideshows."
 * "integration of Knitr with RStudio, so I'm interested in learning more about
   that"
-
-
-
+* integrate LaTex and R or exporting R results for writing reports or journal papers.
+* I'm interested in how he uses RStudio & the applications of his reproducible
+research (how does it get published? does he publish the whole report with
+source? Share with his peers? Just remember it for later.
+* I would be interested in experience-based best practices for keeping analyses
+organised as well as reproducible. Any tips about streamlining the re-use of
+analyses with different data sets would be good too.
+* Latex
+* I'm interested in reproducible analysis because it seems to offer the ability
+to complete more experiments in less time. I'm most interested in the planning
+that goes into it and how you would still have the flexibility to follow
+results.
+* Macros
+* Any experience integrating with the new generation of javascript visualisation
+tools like d3?
+* workflow and good practice (e.g. spreading source code over multiple files vs
+single file) in using Srstudio and markdown as an IDE, also in integrating them
+with unit testing (e.g. Hadley Wickham's testthat package).
 
 
 

examples/markdown-introduction/markdown-introduction.md

@@ -0,0 +1,136 @@
+## Basic markdown functionality
+
+# Heading 1
+## Heading 2
+### Heading 3
+#### Heading 4
+
+
+
+
+
+
+### Basic formatting
+Bold text: **Bold text**
+Italics text: *italics text*
+
+### Paragraphs
+Insert blank line:
+
+Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. 
+
+Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
+
+### Dot Points
+Simple dot points:
+
+* Point 1
+* Point 2
+* Point 3
+
+and numeric dot points:
+
+1. Number 1
+2. Number 2
+3. Number 3
+
+and nested dot points:
+
+* A
+    * A.1
+    * A.2
+* B
+    * B.1
+    * B.2
+
+
+
+### Equations
+Uses Mathjax to support LaTeX equations.
+
+Inline equations: e.g., $y_i = \alpha + \beta x_i + e_i$.
+
+Displayed equations:
+
+$$
+\frac{1}{1+\exp(-x)}
+$$
+
+
+
+### Hyperlinks
+
+* [my RSS feed](http://feeds.feedburner.com/jeromyanglim).
+* <http://www.r-project.org/>
+
+
+
+### Images
+
+![image description here](figure/buildings.jpg)
+
+
+
+
+
+
+
+### Code
+Inline code between backticks: e.g., `print('hello world!')`.
+
+Displayed code can be tab indented or four space indented:
+
+    ```{r}
+    x <- 1:10
+    x
+    ```
+
+
+### Quote
+Quotes by adding greater than to start of each line.
+
+> To be, or not to be, that is the question:
+> Whether 'tis nobler in the mind to suffer
+> The slings and arrows of outrageous fortune,
+
+
+### Tables
+Extended github table functionality:
+
+A   | B      |   C
+--- | ---    | ---
+1   | Male   | Blue
+2   | Female | Pink
+
+Or just write HTML:
+
+<table border="1">
+    <tr>
+    	<td>Cell A1</td>
+        <td>Cell B1</td>
+    </tr>
+    <tr>
+        <td>Cell A2</td>
+        <td>Cell B2</td>
+	</tr>
+</table>
+
+
+
+### HTML is passed through
+Hyperlink
+<a href="http://jeromyanglim.blogspot.com">My website</a>
+
+E.g., new line
+<hr />
+
+HTML Symbol Entities
+
+&alpha; &beta; &trade;
+
+
+
+
+
+

examples/markdown-introduction/markdown-introduction.rmd

@@ -0,0 +1,136 @@
+## Basic markdown functionality
+
+# Heading 1
+## Heading 2
+### Heading 3
+#### Heading 4
+
+
+
+
+
+
+### Basic formatting
+Bold text: **Bold text**
+Italics text: *italics text*
+
+### Paragraphs
+Insert blank line:
+
+Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat. 
+
+Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur. Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.
+
+
+### Dot Points
+Simple dot points:
+
+* Point 1
+* Point 2
+* Point 3
+
+and numeric dot points:
+
+1. Number 1
+2. Number 2
+3. Number 3
+
+and nested dot points:
+
+* A
+    * A.1
+    * A.2
+* B
+    * B.1
+    * B.2
+
+
+
+### Equations
+Uses Mathjax to support LaTeX equations.
+
+Inline equations: e.g., $y_i = \alpha + \beta x_i + e_i$.
+
+Displayed equations:
+
+$$
+\frac{1}{1+\exp(-x)}
+$$
+
+
+
+### Hyperlinks
+
+* [my RSS feed](http://feeds.feedburner.com/jeromyanglim).
+* <http://www.r-project.org/>
+
+
+
+### Images
+
+![image description here](figure/buildings.jpg)
+
+
+
+
+
+
+
+### Code
+Inline code between backticks: e.g., `print('hello world!')`.
+
+Displayed code can be tab indented or four space indented:
+
+    ```{r}
+    x <- 1:10
+    x
+    ```
+
+
+
+
+### Quote
+Quotes by adding greater than to start of each line.
+
+> To be, or not to be, that is the question:
+> Whether 'tis nobler in the mind to suffer
+> The slings and arrows of outrageous fortune,
+
+
+### Tables
+Extended github table functionality:
+
+A   | B      |   C
+--- | ---    | ---
+1   | Male   | Blue
+2   | Female | Pink
+
+Or just write HTML:
+
+<table border="1">
+    <tr><td>Cell A1</td>
+        <td>Cell B1</td></tr>
+    <tr><td>Cell A2</td>
+        <td>Cell B2</td></tr>
+</table>
+
+
+
+### HTML is passed through
+Hyperlink
+<a href="http://jeromyanglim.blogspot.com">My website</a>
+
+
+
+E.g., new line
+<hr />
+
+HTML Symbol Entities
+
+&alpha; &beta; &trade;
+
+
+
+
+
+