[BioPython] TFBS recognition modules

[katel at worldpath.net]

  If you want and have perl could I can help port it.  I contributed some
code to biopython but lately I've been busy with java ( MAExplorer) because
I had a clearer idea of what users need.

                Cayte


Original Message:
-----------------
From: Omid Khalouei omid9dr18 at hotmail.com
Date: Fri, 16 May 2003 21:09:15 +0000
To: biopython at biopython.org
Subject: [BioPython] TFBS recognition modules


Dear friends;


I've just obtained my double majors in computer science and human biology 
and am currently working in a hospital as a bioinformatist. In one of my 
computer science courses at U of T, two of our professors performed a 
research on us and taught half the class Perl and the other half Python. At 
the end of the term they announced that whatever code students in Perl 
section wrote in, say, 10 lines, the ones in Python section could write in 
4,5 lines and they said soon Python will take over Perl in different fields.
Saying all these, now in my project I have to find software/algorithms that 
help in the detection of transcription factor binding sites(TFBS). I
noticed 
that there are Perl modules made just for this purpose. I really want to 
stay loyal to Python and dont' want to start learning and using Perl. I was 
wondering if any of you know if there are any similar modules in Python, or 
if it's easy to read Perl line by line and "translate" it to Python and
then 
continue with that.
Sorry if my explanation was not very clear. Thank you for taking time 
reading this.

All the best
Sam Khalouei

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