[BioPython] How to read SOFT files from GEO?

[Sean Davis]

Maurice Ling wrote:
> Hi,
>
> Are there any examples to read SOFT file from GEO? I've looked in the 
> cookbook and there isn't any mention about GEO.
>   
I don't know of biopython code to do this, but there is a package for 
the R statistical language that will do this.  The nice thing about 
doing this from R is that there are hundreds of tools that can then be 
applied to whatever data you like.  The package is part of Bioconductor 
(http://www.bioconductor.org) and is called GEOquery.  And of course, 
you can use R from python using Rpy.

Sean

P.S.  Legal disclaimer--I am the author of said package, so take my 
words with the appropriate grain of salt.