[BiO BB] amino acid distribution in multiple alignment
idoerg at burnham.org
Wed Dec 18 12:22:19 EST 2002
I do not know of a complete application which does that. If you are
inclined to write around existing modules, then:
o Biopython has what you need in the Bio.Align.AlignInfo module.
o AFAIK, Bioperl do not have a calculating script of the kind you are
looking for, but you can write something around Bio::SimpleAlign.
Hope this helped somewhat,
Dana Reichmann wrote:
> Hi all,
> I am looking for a program or script for calculation of amino acid
> distribution in specific column in ungaped multiple alignment. Most program
> I know calculates PSSM that includes weights calculation according to PAM or
> Blosum matrixes. I just need a simple representation of amino acid
> distribution in specific column in ungaped multiple alignment.
> Thanks a lot,
> Dana Reichmann
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