How to Call R from Python - an Rpy2 Tutorial

In this rpy2 tutorial we will be calling R from Python. We will go through a couple of rpy2 examples in which we are running r from Python to do data analysis.

Rpy2 is a Python module that makes it very easy to call r from Python. If you are using anaconda Python distribution you can easily install r and rpy2 using conda (see example in video).

You will also learn how to fix LibraryError where you get a conflict when converting R symbols to Python symbols. It may be due to duplicate function/method names when translating R code to Python...


» Learn how to display R plots in Jupyter Notebooks (rpy2):

» Rpy2 documentation:

The packages installed and used in the examples:

» afex:

» emmeans:

[dixonbasil]

how do i call a R function from python?

[BiologyIsHot]

How do I convert a single numeric return value in rpy2 to a float

[farzadtb]

I am stuck right at the beginning !! using Anaconda 3, I get ValueError: The system "%s" is not supported. when I do : import rpy2.robjects.packages as rpackages

[ww]

Hi, for some reason rpy2 is not finding a library that I installed "imagefx". This package is only available for R versions > 3.5. How do I check which version of R that the rpy2 is running ?

[sergeynosov]

"have_packege" is excess variable. The code could be written without it.

[knjpollard]

I’m dubious about this feature. What is the point? If I’m in Python why would I want to call R. There’s nothing in R that Python can’t do.

I mean I use both Python and R, but generally I don’t mix them. I generally like R better for stats and plotting, but pythons maturity with Spark is better than R’s.