1. knitr and markdown EPID 799C Fall 2017
To get ready for today: Create new  markdown file (word or html)
If it doesn’t work, follow the package prompts…

2. Why?
The loop for generating papers in specific and knowledge in general takes too long to re/iterate.
Integrating analysis and outputs / formatting is a key obstacle to that loop.
What if you could push a button and rebuild your paper / website / presentation from scratch?

3. A manifesto for reproducible science

4. rOpenSci Our Vision and Mission
rOpenSci fosters a culture that values open and reproducible research using shared data and reusable software.
We do this by:  Creating technical infrastructure in the form of carefully vetted, staff- and community-contributed R software tools that lower barriers to working with scientific data sources on the web
Creating social infrastructure through a welcoming and diverse community
Making the right data, tools and best practices more discoverable building capacity of software users and developers and fostering a sense of pride in their work
Building capacity of software users and developers and fostering a sense of pride in their work
Promoting advocacy for a culture of data sharing and reusable software.

5. What is Markup?
Specific Markup language: HTML = Hypertext Markup Language

6. Why Markdown? Markdown produces Markup Abstracted to minimize coding
Can be sent to multiple platform-specific markup outputs (word, html, etc.)

7. What is R Markdown?
From the cheat sheet…

8. Let’s Try!