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http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl HYPHY Package >> HyPhy feedback >> Amino acid ordering for "format datatype=protein" http://www.hyphy.org/cgi-bin/hyphy_forums/YaBB.pl?num=1279696752 Message started by noob on Jul 21^st, 2010 at 12:19am

Title: Amino acid ordering for "format datatype=protein"
Post by noob on Jul 21^st, 2010 at 12:19am

Hi Sergei,

If I look at an amino acid rate matrix in hyphy, how are the amino acids ordered along the rows and columns? I'm using "format datatype=protein" from within a nexus file.

Apologies if this is nicely documented somewhere. I can't seem to find it anywhere.

Regards,
noob

Title: Re: Amino acid ordering for "format datatype=protein"
Post by Sergei on Jul 21^st, 2010 at 7:01am

Alphabetically based on one letter IUPAC codes: A,C,D,E...

Sergei