Here is a dummy piece of R code.
pca <- prcomp(matrix(rnorm(10*10), ncol=10))
pca$x
pca$rotation
The third line appears indented, whereas it is not in the source. Removing the $
sign from the line unindents it, so it looks like a collision between MathJax and Markdwon (at least Showdown).
How can I use the $
notation in R code while avoiding this?