[Biopython-dev] OligoPython for Affymetrix data

Iddo Friedberg idoerg at burnham.org
Sat Apr 3 21:57:16 EST 2004

Hi Harry,

Thanks for your effort. This sounds like a welcome contribution.

I am getting "connection refused" when I am trying get the URL you 
listed. Can you check that out please?



Harry Zuzan wrote:
> Hello,
> A short while back I asked if there was an interest in code for
> handling Affymetrix data.  The answer was yes, so I put together a
> simple module for reading in an Affymetrix cel file.  The data parsed
> from the cel file are then available in the form of Numeric arrays.
> There is a complementary module that encapsulates these data and makes
> them much more useful but it is more complex so I thought I'd find my
> BioPython legs with this simple module.  I need to work on an install
> script, better documentation, better error handling and an alpha
> version number.  I also need to make Makefile for the C++ module
> friendly to more users.
> The code is at www.oligopython.org.  I'm calling it OligoPython until
> it is in the BioPython cvs tree.  The OligoPython license is the
> BioPython license verbatim except for the heading.
> Since I am unfamiliar with cvs and writing Python install scripts and
> writing Makefiles that compile under many versions of unix, I would
> appreciate any help integrating this module with BioPython so that I
> can add another important module soon.
> I'm hoping that there will be interest in this so any feedback is
> appreciated.
> Best,
> Harry
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Iddo Friedberg, Ph.D.
The Burnham Institute
10901 N. Torrey Pines Rd.
La Jolla, CA 92037
Tel: +1 (858) 646 3100 x3516
Fax: +1 (858) 713 9930

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