I have an RMarkdown document outputting to HTML of the same form as the below example. What do I add where to apply unique CSS ids or classes to each plot output?
Open the resultant HTML in a browser with a Developer Tools option and look at the generated HTML. Then apply you styling to the appropriate tags/classes. For example, put the following into style.css, knit the file and you should see a red border on the plots:
img {
background-color: red;
padding: 2px;
border: 1px solid red;
border-radius: 3px;
margin: 0 5px;
max-width: 100%;
}