How to pool ROC curves in R to better understand a model's performance (CC135)
In this Code Club, Pat shows how he would pool ROC curves so that you can directly assess a model’s sensitivity for specificity. The area under the receiver operator characteristic (ROC) curve (AUC) is a useful metric of performance, but it isn’t always the best way to assess performance since it looks over all possible specificities. The challenge is that with the mikropml framework we get one ROC curve per 80/20 training-testing split and we need to pool the curves to get a composite ROC curve. Even if you don’t care about ROC curves, this episode is sure to have a lot of value for you including a little known R tip towards the end of the episode!
Pat will use functions from the
mikropml R package and the
dplyr packages in
You can browse the state of the demo at the
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 git
- 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/mikropml_demo.git cd mikropml_demo git reset --hard 473f3da8502b49f1382e16826e6bcfc7b361b930 git remote set-url origin firstname.lastname@example.org:<your_github_id>/mikropml_demo.git git push -u origin master
- Return to GitHub and refresh your browser.
- Go to the
mikropml_demodirectory on your computer and double click on the
mikropml_demo.Rprojicon. This will launch RStudio and you’ll be good to go.