On Thu, Oct 11, 2018 at 10:15 AM Yihui Xie <x...@yihui.name> wrote: > > I just have one comment on the multi-language support in R Markdown > (inline below): > > On Thu, Oct 11, 2018 at 6:19 AM Ista Zahn <istaz...@gmail.com> wrote: > > > > Hi Spencer, > > > > On Thu, Oct 11, 2018 at 5:08 AM Spencer Graves > > <spencer.gra...@effectivedefense.org> wrote: > > > > > > Hello: > > > > > > > > > What are the differences between Jupyter notebooks and RMarkdown > > > vignettes? > > > > Here are some of the main differences I'm aware of: > >
<snip> > > Rmarkdown is specific to R (I guess there is some basic support in > > knitr for other languages, but in my experience it never worked well) > > while Jupyter notebooks are language agnostic and "kernels" exist for > > a large number of programming languages. However, each Jupyter > > notebook can use only one kernel; you can't easily have R and Python > > code in the same notebook. > > You might want to at least update your impression about the Python > support in R Markdown now :) Last year, with the release of the > reticulate package, the support for Python has been substantially > enhanced in both R Markdown > (https://bookdown.org/yihui/rmarkdown/language-engines.html) and > RStudio > (https://blog.rstudio.com/2018/10/09/rstudio-1-2-preview-reticulated-python/). > You can easily have both R and Python code in the same R Markdown > document, and the two worlds can freely talk to each other. Yes, I did miss that development, thank you for that! I haven't spent much time with it yet, but that looks really great. --Ista > > > Jupyter notebooks typically run in your browser where the actual text > > editing features are somewhat limited. Rmarkdown is typically run in > > an editor such as Emacs or Rstudio where editing and project support > > is much better and greater customization may be possible. You can work > > indirectly with Jupyter notebooks in Emacs > > (https://github.com/millejoh/emacs-ipython-notebook) and perhaps other > > editors as well; this goes some way toward escaping the tyranny of the > > browser but is more fragile and difficult to get working compared to > > Rmarkdown. > > > > Because Jupyter uses a web-based client-server model, it is easy to > > provide live interactive notebooks on your website (see e.g., > > https://github.com/jupyterhub/binderhub). As far as I know this is not > > currently possible with Rmarkdown. > > > > > > > > > > > I'm trying to do real time monitoring of the broadcast quality of > > > a radio station, and it seems to me that it may be easier to do that in > > > Python than in R.[1] This led me to a recent post to > > > "python-l...@python.org" that mentioned "Jupyter, Mathematica, and the > > > Future of the Research Paper"[2] by Paul Romer, who won the 2018 Nobel > > > Memorial Prize in Economics only a few days ago. In brief, this article > > > suggests that Jupyter notebooks may replace publication in refereed > > > scientific journals as the primary vehicle for sharing scientific > > > research, because they make it so easy for readers to follow both the > > > scientific and computational logic and test their own modifications. > > > > > > > > > A "Jupyter Notebook Tutorial: The Definitive Guide"[3] suggested > > > I first install Anaconda Navigator. I got version 1.9.2 of that. It > > > opens with options for eight different "applications" including > > > JupyterLab 0.34.9, Jupyter Notebook 5.6.0, Spyder 3.3.1 (an IDE for > > > Python), and RStudio 1.1.456. > > > > > > > > > This leads to several questions: > > > > > > > > > 1. In general, what experiences have people had with > > > Jupyter Notebooks, Anaconda Navigator, and RMarkdown vignettes in > > > RStudio, and the similarities and differences? Do you know any > > > references that discuss this? > > > > I've used both extensively, and noted the differences I've discovered above. > > > > > > > > > > > 2. More specifically, does it make sense to try to use > > > RStudio from within Anaconda Navigator, or is one better off using > > > RStudio as a separate, stand alone application -- or should one even > > > abandon RStudio and run R instead from within a Jupyter Notebook? [I'm > > > new to this topic, so it's possible that this question doesn't even make > > > sense.] > > > > The only advantage I can think of to using Rstudio via Anaconda is > > that you could use conda environments to maintain different versions > > or R and/or R packages for different projects. > > > > You'll have to weigh the pros and cons to decide whether to switch > > from Rstudio to Jupyter notebooks. Depending on what you want to do > > there are both advantages and disadvantages, as discussed above. > > > > Finally, I have to give a plug for a couple of related tools that I > > find very useful. > > > > Emacs org-mode https://orgmode.org/ gives you the best of both worlds: > > notebooks unconstrained by the browser that can include code in > > multiple languages, header arguments, excellent export support, etc. > > It is superior to both Jupyter and Rmarkdown, except that support only > > exists in Emacs. > > > > Jupytext (https://github.com/mwouts/jupytext) is another way to have > > it all, by allowing you to edit in markdown or Rmarkdown, and > > auto-generating a notebook and possibly other formats for you. I've > > only recently started experimenting with it, but so far I like it a > > lot. > > > > Best, > > Ista > > > > > > > > > Thanks, > > > Spencer Graves > > > > > > > > > [1] If you have ideas for how best to do real time monitoring of > > > broadcast quality of a radio station, I'd love to hear them. I need > > > software that will do that, preferably something that's free, open > > > source. The commercial software I've seen for this is not adequate for > > > my purposes, so I'm trying to write my own. I have a sample script in > > > Python that will read a live stream from a radio tuner and output a > > > *.wav of whatever length I want, and I wrote Python eight years ago for > > > a similar real time application. I'd prefer to use R, but I don't know > > > how to get started. > > > > > > > > > [2] 2018-04-13: > > > "https://paulromer.net/jupyter-mathematica-and-the-future-of-the-research-paper";. > > > This further cites a similar article in The Atlantic from 2018-04-05: > > > "www.theatlantic.com/science/archive/2018/04/the-scientific-paper-is-obsolete/556676". ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
