Anant Jain wrote:
Thank Sir,
So should i use this
SubstituionMatrix matrix = new SubstitutionMatrix("PROTEIN_TERM",new
File (BLOSUM62.50"));
Anant Jain
DYPBBI,
Pune,India
Dear Anant Jain,
"PROTEIN_TERM" is a String and not a FiniteAlphabet. Please have a look
at the following example, where the alphabet "DNA" is used. Just replace
"DNA" by "PROTEIN_TERM" and it will work for you:
http://biojava.org/wiki/BioJava:CookBook:DP:PairWise2
Cheers
Andreas
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