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This has been discussed before but I am watching the development of https://github.com/fonsp/Pluto.jl so that it can provide some solid alternative.
For the Python in markdown case, you might be interested in one of my projects that allows executable Python code (including optional Jupyter kernel support) in Pandoc markdown: https://github.com/gpoore/codebraid. Pandoc does all the document parsing (there is no regex preprocessor for extracting code), so converting markdown to markdown often works particularly well.
If you're interested in Pluto.jl, I recently saw an announcement about Neptune.jl[1], which appears to remove some of the reactive nature of Pluto. An interesting read anyway and maybe worth trying.
I recently discovered R Markdown. Started doing the ISLR examples with it.
https://github.com/melling/ISLR/blob/main/chapter08/08_Lab02...
https://github.com/melling/ISLR/blob/main/chapter08/08_Lab02...
I need to figure out how to better fit images so I don’t have pages with large gaps
Also, you can now embed executable Python in the files.
I haven't use it myself but apparently jupytext (https://github.com/mwouts/jupytext) allows you to save Jupyter notebooks as R markdown files.
You can avoid project related issues by using the here package.
We have tried for almost four years without success: https://github.com/rstudio/rmarkdown/issues/1020 We did hear back from Github for a few times, but there has been no sign of progress at all. We will truly appreciate it if anyone can connect us to a Github contact to push this forward.