Generating reproducible, dynamic documents
You can find my version of the project on GitHub.
Important things to remember
- GitHub flavored markdown
- R markdown
- Code chunk options
FALSE): whether to include the code in the rendered file
FALSE): whether to include any messages generated by commands (e.g.
If you haven’t been following along, you can get caught up by doing the following:
- (windows) Install the Ubuntu Linux BASH shell for Windows 10
- (mac) Install
/usr/bin/ruby -e "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install)" brew install wget
- To get to where we are at the beginning of this episode (you won’t have the same issue numbers at Pat)…
- Set up a GitHub account
- Create a new GitHub repository
- Call it “Schloss_rrnAnalysis_XXXX_2020” (feel free to use your own last name)
- Make it Public
- Don’t check the box next to “Initialize this repository with a README”
- Click the green “Create repository” button
Go to your command line and enter the following replacing
<your_github_id>with your GitHub user id
git clone email@example.com:SchlossLab/Schloss_rrnAnalysis_mSphere_2020.git cd Schloss_rrnAnalysis_XXXX_2020 git reset --hard a4ade7f42 git remote set-url origin firstname.lastname@example.org:<your_github_id>/Schloss_rrnAnalysis_XXXX_2020.git git push -u origin master
- Return to GitHub and refresh your browser. Then you’ll be good to go.