X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=help%2Fhtml%2Fcalculations%2Fscorematrices.html;h=5fbbc194f2dde467cf88aad0e748c9d188dd40c7;hb=550949340ef5ccd5757dd50b11b9613d61571046;hp=f6bffb0c3055dfe58f7aff8cc4d88f6f65116e5a;hpb=40adaea88739e0535914a278b141dc68f27f79ce;p=jalview.git
diff --git a/help/html/calculations/scorematrices.html b/help/html/calculations/scorematrices.html
index f6bffb0..5fbbc19 100644
--- a/help/html/calculations/scorematrices.html
+++ b/help/html/calculations/scorematrices.html
@@ -33,7 +33,8 @@
matrix, and (since 2.8.1) is available for Tree and PCA
calculations.
Simple Nucleotide
- Substitution is a (fairly) arbitrary DNA/RNA substitution matrix.
+ Substitution is a (fairly) arbitrary DNA/RNA substitution
+ matrix.
@@ -721,9 +722,10 @@
PAM250
Percentage
Accepted Mutation matrix. PAM250
estimates substitutions after 250% of sites have changed (each
- site can be mutated multple times).
Jalview 2.8.1 introduced
- support for PAM250 based PCA
- and tree calculations.
+ site can be mutated multple times).
Jalview 2.8.1
+ introduced support for PAM250 based PCA and tree calculations.
This nucleotide matrix was introduced in
Jalview 2.8. If you'd like to improve it - please take a look at Issue JAL-1027 - introduce a nucleotide substitution matrix that
+ href="http://issues.jalview.org/browse/JAL-1027">Issue
+ JAL-1027 - introduce a nucleotide substitution matrix that
supports RNA/DNA and ambiguity codes