[Protein-analysis] Amino acid colours

Graham Alvare via proteins%40net.bio.net (by alvare from cc.umanitoba.ca)
Wed Feb 24 15:33:51 EST 2010


I am looking for a file format for specifying colours to be used when 
displaying amino acids in a multiple protein alignment.

Programs such as JMol appear to hard-code these colours.  Are there any 
formats for existing programs that read colour schemes from a file?

I am writing a multiple sequence alignment editor and would like to be 
able to read in many different colour schemes from files.  For example 
one colour scheme for hydrophobic vs. hydrophilic residues, and another 
for secondary structure.

I would rather use an existing format than create a new one.


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