Reproducible research

• Data [csv, html, Excel, MySQL]
• Analysis [EViews, Stata, R]
• Reporting
  • Figures and tables [Excel]
  • Documents [Word, LaTeX]
  • Presentation [PowerPoint, pdf]
  • Web [html]
    • Sharing
    • Interactive

Reproducible research

• Rmarkdown: Reproducible research with R

• .Rmd files
  • Header
  • Text (with simple formatting)
  • Code
    • Code chunks
    • Inline code
• Documents
  • Word, odt, rtf, pdf, html, presentation (ioslides, beamer, slidy), dashboard, websites, etc.

Header

• At the beginning of the file
• Starts and ends with “- - -”
• Options
  • title
  • subtitle
  • author
  • date
  • output
    • Output options (Table of Contents, templates, etc)
  • css files
  • Other options

Text and formatting

• Headers
• Lists
• Links
• Images
• Block quotes
• Latex equations
• Horizontal rules
• Tables
• Footnotes
• Bibliographies and Citations
• Slide breaks
• Italicized text
• Bold text
• Superscripts
• Subscripts
• Strikethrough text

Code

• Code chunks
  • Starts with ```{r} and ends with ```
• Inline code
  • Write the code within ` r and `

Code chunk options

• include = FALSE prevents code and results from appearing in the finished file. R Markdown still runs the code in the chunk, and the results can be used by other chunks.
• echo = FALSE prevents code, but not the results from appearing in the finished file. This is a useful way to embed figures.
• message = FALSE prevents messages that are generated by code from appearing in the finished file.
• warning = FALSE prevents warnings that are generated by code from appearing in the finished.
• results = “hide” does not show results
• results = “asis” shows results as is (for html, text, etc.)

Tables

• Use R packages (stargazer, xtable, etc)
• Use Rmarkdown tables

An example

Third level heading

A code chunk

aa <- data.frame(id = c(1:5), grade = rnorm(5))
aa

##   id      grade
## 1  1  1.3016684
## 2  2  0.2411502
## 3  3 -0.1859753
## 4  4  0.9053623
## 5  5 -0.3159602

Inline code

Mean of grade is 0.3892491

Bold and italics

Bold and italics are used here.

Block quote

Block quote is here.

Unordered list

• Unordered list 1
• Unordered list 2
  • Sub-list 1
  • Sub-list 2

Ordered list

1. Ordered list 1
2. Ordered list 2
   1. Sub-list 1
   2. Sub-list 2

html codes

We can also use html codes

Equations

A³ and A_X

$A = \pi*r^{2}$

Tables

R Markdown info

R Markdown Cheat Sheet

R Markdown: The Definitive Guide by Yihui Xie, J. J. Allaire, Garrett Grolemund