Two years ago I wrote a post demonstrating Python pre-processing of EEG data using Python chunks in an RMarkdown document. This worked great. But something I mentioned then was that there was a package called reticulate that would allow more direct interfacing with Python in R. That package has been under a lot of development since then, as has RStudio. Plots produced in Python chunks can now be embedded in RMarkdown.
As mentioned in my last post, an issue doing EEG analysis in R at the moment is that there’s a distinct lack of tools in R for a lot of the typical processing steps. In the past I’ve done a lot of processing in Matlab (specifically with EEGLAB and Fieldtrip) and shifted things over to R for statistics. But all is not lost. For example, with the following code, I can run a bunch of preprocessing, including automatic artefact rejection, and have nice ERPs in R in the blink of an eye!