Tag Archives: rpy2

R warnings when starting rpy2 and installation

Posted on January 24, 2013 by Thomas Cokelaer

On Fedora 15 When I start rpy2 using this command import rpy2 from rpy2 import robjectsimport rpy2 from rpy2 import robjects I was getting these annoying warnings, which do not appear when starting a pure R session: During startup – … Continue reading →

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Upgrading R and rpy2

Posted on October 9, 2012 by Thomas Cokelaer

When upgrading R version, you must recompile rpy2. Let us take a case study based on the upgrade of R2.15 to R2.15.1. First, you need to download the source from the main page http://www.r-project.org/ Once downloaded, get the source tar … Continue reading →

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How to call R plotting function from python using rpy2

Posted on April 3, 2012 by Thomas Cokelaer

Python has already very good librairies from plotting (e.g., matplotlib, mayavi), however, it is sometimes useful to use some of the plotting functionalities offered by R. Thanks to the rp2 package, it is quite easy. Let us try to use … Continue reading →

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installing rpy2 with different R version already installed

Posted on January 31, 2012 by Thomas Cokelaer

The easiest way to install a python package is to use easy_install (or pip), so to install rpy2, type: easy_install rpy2 To test that it is properly installed, type: import rpy2; from rpy2 import robjects; robjects.r(“version”) If this code works, … Continue reading →

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RPy2 substitute function does not work

Posted on September 28, 2011 by Thomas Cokelaer

I’m using rpy2 to call R package from Python, which works pretty well most of the time. Yet, I’ve encountered an issue with the R function called substitute that do not behave as expected when called from rpy2. Consider the … Continue reading →

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Fitting distribution by combing R and Python

Posted on August 31, 2011 by Thomas Cokelaer

The following example illustrates how to use R package with Python by using the Rpy2 package. This problem solve in this example is to fit a normal distribution on some data samples.   from rpy2.robjects import r from rpy2.robjects.packages import … Continue reading →

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