[BioPython] FASTA input module + Nussinov algorithm module: RNA secondary structure predicti

[Catherine Letondal]

"fhjdfj jfgkhggyk" wrote:
> I am just writing to request a bit of help - I wish to set up a system that 
> will take multiple RNA sequences in FASTA format and feed them into a 
> Nussinov RNA secondary structure prediction program. I have found a good 
> python module for the Nussinov on the web at:
> 
> http://bioinfo.sarang.net/Moin/Nussinov_2epy
> 
> Discovering this has pleased me no end. Has anyone got any idea where i can 
> find a FASTA input python module and how I would interlink it to the 
> nussinov module that i already have? It may need to be spelt out to me as my 
> python expertise is south of poor.
> I have seen some info on python fasta input code at:
> 
>   
> http://www.pasteur.fr/recherche/unites/sis/formation/python/ch02s08.html#ex_readingfasta

This link refers to an *exercise* that was to be done by students
before introducing Biopython. So do not use it as the standard tool: there
are very good modules in Biopython to do this.

> 
> But i have no idea how to go about integrating this with my nussinov module. 
> Any suggestions would be greatly appreciated and will maybe once again give 
> me the luxury of sleep.
> 
> 
> 
> 
> 
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--
Catherine Letondal -- Pasteur Institute Computing Center