Author: bugman
Date: Thu Jan 22 16:01:39 2015
New Revision: 27266
URL: http://svn.gna.org/viewcvs/relax?rev=27266&view=rev
Log:
Added a DNA similarity matrix to lib.sequence_alignment.substitution_matrices.
Modified:
trunk/lib/sequence_alignment/substitution_matrices.py
Modified: trunk/lib/sequence_alignment/substitution_matrices.py
URL:
http://svn.gna.org/viewcvs/relax/trunk/lib/sequence_alignment/substitution_matrices.py?rev=27266&r1=27265&r2=27266&view=diff
==============================================================================
--- trunk/lib/sequence_alignment/substitution_matrices.py (original)
+++ trunk/lib/sequence_alignment/substitution_matrices.py Thu Jan 22
16:01:39 2015
@@ -25,6 +25,14 @@
# Python module imports.
from numpy import array, int16
+
+SIMILARITY_DNA_SEQ = 'AGCT'
+SIMILARITY_DNA = array([
+ [ 1, -1, -1, -1],
+ [-1, 1, -1, -1],
+ [-1, -1, 1, -1],
+ [-1, -1, -1, 1]
+], int16)
BLOSUM62_SEQ = 'ARNDCQEGHILKMFPSTWYVBZX*'
BLOSUM62 = array([
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