View source for Rpy

[http://rpy.sourceforge.net/ rpy] is a [[python]] interface to the statistics package [[R]].

* [http://rpy.sourceforge.net/documentation.html Documentation]
* [http://www2.warwick.ac.uk/fac/sci/moac/currentstudents/peter_cock/python/lin_reg/  Using Python (and R) to calculate Linear Regressions]

An example to plot a [http://www.sciencemag.org/cgi/content/full/319/5871/1772 heat map], based on a very nice [http://www2.warwick.ac.uk/fac/sci/moac/currentstudents/peter_cock/python/heatmap/#Python example of how to use R from python to draw a heat map from micro array data].
 
<python>from rpy import r
import numpy
data = numpy.random.randn(100,30)  # fake data

r.X11()  # use windowing system X11
r.heatmap(a)
</python>

[[Image:Hm_gauss2.png|thumb|Example heat map from a Gaussian (mean=0, sd=1) 100x30 matrix of fake data.]]

Using an appropriate output device (pdf, png, ...) one can directly produce publication-quality images:
<python>r.library('gplots')  # loads a library for heatmap.2
r.pdf('hm_gauss2.pdf')  # output to file
r.heatmap_2(a,col=r.topo_colors(100),trace="none") # plot heatmap
r.dev_off()  # close file output
</python>

[[Category:Analysis]]
[[Category:Statistics]]
[[Category:Python]]