[Bioperl-l] use CLUSTALW on Windows?

Chris Fields cjfields at illinois.edu
Thu Apr 30 13:04:46 EDT 2009

I don't recall this being a UNIX-only issue, though admittedly it's  
been years since I've tried running the bioperl-run modules on WinXP.   
I do recall getting BLAST, EMBOSS and others to work though; I don't  
see why ClustalW would be much different.

Have you actually tested this out and found a problem?  Have you tried  


On Apr 30, 2009, at 11:52 AM, Jon Flowers wrote:

> Hi,
> There is no means to do this in bioperl, but it is simple to make a  
> system
> call and execute an MSA program such as MUSCLE to align fasta- 
> formatted
> sequences using something like...
> qx(muscle -in $infilename -out $outfilename)
> Jonathan
> laxmanb wrote:
>> I need to create a multiple sequence alignment of some sequences  
>> using
>> CLUSTALW or any other Multiple sequence alignment program. However,  
>> I've
>> learnt that this functionality used to be UNIX/Linux only. However,  
>> the
>> documentation is also very old, so I'd like to know if any CLUSTAL/  
>> any
>> other MSA programs can be run using BioPerl on Windows.
>> Thank you for your time :)
> -- 
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