Recently I’ve been working with some of the statistics staff at the University of Manchester on sports analytics. Specifically we’ve been looking for useful models in football data. People from this background normally use R to analyze data and fit models.
Normally I would use Python for this kind of task but, since there was already a considerable amount of code in R, it made sense for me to do some work in R. The people at Continuum Analytics (who make the brilliant Anaconda Python distribution) recently announced support for R using their package manager conda. However, it wasn’t easy to find instructions to get a fully working environment, so here is what I did.
Note: I am assuming that you are using Linux (probably works on Mac too) but I make no guarantees whatsoever that following this will get you a working environment!
You can enter the following into a Bash prompt.
# Create a new conda environment called r conda create -n r anaconda # Switch to r environment source activate r # Installs R conda install -c r r # Install R kernel for IPython notebook conda install -c r r-irkernel # Install ggplot conda install -c https://conda.binstar.org/bokeh ggplot # Install r-matrix, r-nlme, and some other useful libraries. # This may raise an error but I haven't encountered any problems conda install -c https://conda.binstar.org/asmeurer r-nlme # Install lme4 (linear mixed models) conda install -c https://conda.binstar.org/asmeurer r-lme4
You can now start up a Jupyter notebook, which is preinstalled with the R kernel, and start using R as follows.
9 thoughts on “How to setup R using conda”
Hi Sam, very nice write-up on creating an R environment using conda. I’ve added a bunch of new info to our conda docs site recently, but none yet on setting up R environments. I’d love to link to your instructions or reproduce them for our users, with link and credit to you of course. Please let me know what is your pleasure.
Thanks, I’m glad you think so! Please feel free to copy the instructions, you may as well reproduce them, and modify as you see fit, to avoid users needing to visit another page 🙂
Thank you so much for this writeup. It works perfectly on Mac OSX El Capitan. So I guess you can remove the phrase “Probably works on mac too ” to “Works on mac as well !!”
Thanks Babinu, I’m glad it helped you out!
for ggplot, i cant use your tutorial but I use conda install -c conda-forge ggplot
also I cant use this in windows
# Install r-matrix, r-nlme, and some other useful libraries.
# This may raise an error but I haven’t encountered any problems
conda install -c https://conda.binstar.org/asmeurer r-nlme
# Install lme4 (linear mixed models)
conda install -c https://conda.binstar.org/asmeurer r-lme4
But thank you for the tutorial
Hi there, thanks for the comments! This post is actually quite old now (before Anaconda properly supported R) and therefore I’m not surprised that some of it isn’t quite working anymore.
Since R is now fully supported in conda I would recommend installing MRAN (Microsoft R) through conda since it uses multithreaded linear algebra routines. Any libraries can then be installed within R using the install.packages command.
Thank you for replying. I am trying to use R in anaconda. ipython notebook can open using anaconda prompt but do i use command or syntax like library(dplyr),etc…. Thank you
Once you’ve opened an R shell (in Jupyter notebook or R studio for example) you just need to type install.packages(“ggplot2”) etc.