[BioPython] script for clustal alignment format

[Rick Ree]

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Scott,

Here's a quick and dirty script that reads a clustal alignment from stdin
and prints a 'matrix' to stdout.  Should be easily modifiable for fasta.

--Rick

ps. I met you in Vancouver in 1998, nice to hear you are a python convert
:)

On Tue, 24 Oct 2000, Scott T. Kelley wrote:

> Hey bio-Python lovers!
> 
> As I am new to the list, let me introduce myself before I ask my question.
> My name is Scott Kelley and I am a post-doc in microbiology at the
> University of Colorado. I know Andrew (Hi Andrew) through my brother Brian
> Kelley who worked with him at Bioreason. I use python for all sorts of work
> related tasks, mostly related to obtaining biological sequence data or
> editing data into different formats. At the moment, I am working on some
> scripts to download data from the COG (Cluster of Orthologous Genes)
> database a NCBI to use in my work. In that same vein, I was hoping that
> someone could point me to a python script that changed clustal W alignment
> formats to some other type of file format such as Fasta. I could probably
> write my own, but I thought if one was available... Maybe all this is
> included in Biopython? If so, I'll work on getting that running.
> 
> Also I wanted to ask if you all are looking for more python code for
> biopython? I have a whole bunch of scripts I use for various tasks that
> might be of interest. What kinds of things are you looking for?
> 
> Thanks in advance for anwsering my questions. -Scott
> 
> _______________________________________________
> BioPython mailing list  -  BioPython@biopython.org
> http://biopython.org/mailman/listinfo/biopython
> 

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