Merge branch 'releases/Release_2_11_4_Branch'
[jalview.git] / analysis /
drwxr-xr-x   ..
-rw-r--r-- 61 .cvsignore
-rwxr-xr-x 22164 AAFrequency.java
-rwxr-xr-x 26561 AlignSeq.java
-rw-r--r-- 8184 AlignmentAnnotationUtils.java
-rwxr-xr-x 23367 AlignmentSorter.java
-rw-r--r-- 95993 AlignmentUtils.java
-rw-r--r-- 10838 AnnotationSorter.java
-rw-r--r-- 3467 AverageDistanceTree.java
-rw-r--r-- 3437 CodingUtils.java
-rw-r--r-- 3103 CodonComparator.java
-rwxr-xr-x 22841 Conservation.java
-rw-r--r-- 36542 CrossRef.java
-rw-r--r-- 28293 Dna.java
-rw-r--r-- 9276 Finder.java
-rw-r--r-- 11087 Grouping.java
-rw-r--r-- 3426 NJTree.java
-rwxr-xr-x 5321 PCA.java
-rw-r--r-- 5472 ParseProperties.java
-rw-r--r-- 12112 Rna.java
-rw-r--r-- 6211 SecStrConsensus.java
-rwxr-xr-x 8731 SeqsetUtils.java
-rwxr-xr-x 9223 SequenceIdMatcher.java
-rw-r--r-- 13506 StructureFrequency.java
-rw-r--r-- 10019 TreeBuilder.java
-rw-r--r-- 15084 TreeModel.java
-rw-r--r-- 1300 WUSSParseException.java
drwxr-xr-x - scoremodels