JAL-4386 Comparing secondary structure similarity directly with a basic
authorRenia Correya <rcorreya001@dundee.ac.uk>
Tue, 30 Apr 2024 14:34:18 +0000 (15:34 +0100)
committerRenia Correya <rcorreya001@dundee.ac.uk>
Tue, 30 Apr 2024 14:34:18 +0000 (15:34 +0100)
commit4708e769a97588501d41e43df8f756c176b9421d
tree008d7422f8979acf91c777ed5a0259c57044a9da
parenta27329273cb17fbb12b9c714d2500d8913dee32f
JAL-4386 Comparing secondary structure similarity directly with a basic
substitution matrix. Some code refactoring.
src/jalview/analysis/AlignmentUtils.java
src/jalview/analysis/scoremodels/DistanceScoreModel.java
src/jalview/analysis/scoremodels/FeatureDistanceModel.java
src/jalview/analysis/scoremodels/PIDModel.java
src/jalview/analysis/scoremodels/ScoreMatrix.java
src/jalview/analysis/scoremodels/SecondaryStructureDistanceModel.java
src/jalview/analysis/scoremodels/SmithWatermanModel.java
src/jalview/api/analysis/ScoreModelI.java
src/jalview/gui/CalculationChooser.java
test/jalview/analysis/scoremodels/SecondaryStructureDistanceModelTest.java