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[jalview.git] / src / jalview / analysis / scoremodels / ScoreMatrix.java

2019-03-03	gmungoc	JAL-3205 faster calculation with symmetric score matrix	blob \| commitdiff
2017-10-03	gmungoc	JAL-2738 copy to spikes/mungo	blob \| commitdiff \| diff to current
2017-08-16	Jim Procter	JAL-2418 source formatting	blob \| commitdiff \| diff to current
2017-06-09	gmungoc	JAL-2446 merged to spike branch	blob \| commitdiff \| diff to current
2017-05-16	gmungoc	JAL-2403 simplify instantiation / configuration of...	blob \| commitdiff \| diff to current
2017-05-02	gmungoc	JAL-2499 JAL-2403 push 'configure for view' inside...	blob \| commitdiff \| diff to current
2017-04-11	gmungoc	JAL-2403 improved ScoreModelI hierarchy as per Kira...	blob \| commitdiff \| diff to current
2017-03-29	gmungoc	JAL-2416 revert to '*' not '-' in score matrix, handle...	blob \| commitdiff \| diff to current
2017-03-29	gmungoc	JAL-2416 explicit constant for unknown/unknown identity...	blob \| commitdiff \| diff to current
2017-03-28	gmungoc	JAL-2403 JAL-2416 pairwise score unexpected symbols...	blob \| commitdiff \| diff to current
2017-03-28	gmungoc	JAL-2403 further test coverage for ScoreMatrix, min...	blob \| commitdiff \| diff to current
2017-03-27	gmungoc	JAL-2416 parse score matrices in either NCBI or AAindex...	blob \| commitdiff \| diff to current
2017-03-27	gmungoc	JAL-2416 tidy up after switch from ' ' to '-' in score...	blob \| commitdiff \| diff to current
2017-03-27	gmungoc	JAL-2416 score matrix gap symbol (if any) dynamically...	blob \| commitdiff \| diff to current
2017-03-27	gmungoc	JAL-2416 add score model description field for tooltip...	blob \| commitdiff \| diff to current
2017-03-27	gmungoc	JAL-2416 use '-' not space for gap in score matrices	blob \| commitdiff \| diff to current
2017-03-23	gmungoc	JAL-2393 code tidy and comments, PIDDistanceModel depre...	blob \| commitdiff \| diff to current
2017-02-28	gmungoc	JAL-1632 'includeGaps' applied to FeatureDistanceModel...	blob \| commitdiff \| diff to current
2017-02-27	gmungoc	JAL-838 ScoreMatrix now respects SimilarityParams!	blob \| commitdiff \| diff to current
2017-02-24	gmungoc	JAL-838 added 'SeqSpace' PID mode, added parameters...	blob \| commitdiff \| diff to current
2017-02-24	gmungoc	JAL-2403 remove unused ScoreMatrix.symmetric	blob \| commitdiff \| diff to current
2017-02-23	gmungoc	JAL-2403 JAL-1483 changes to ScoreModelI hierarchy...	blob \| commitdiff \| diff to current
2017-02-21	gmungoc	JAL-2416 ScoreMatrix.getMatrix() returns a defensive...	blob \| commitdiff \| diff to current
2017-02-21	gmungoc	JAL-2416 support roundtrip print/parse of ScoreMatrix	blob \| commitdiff \| diff to current
2017-02-21	gmungoc	Merge branch 'develop' into features/JAL-2393customMatrices	blob \| commitdiff \| diff to current
2017-02-21	gmungoc	JAL-2416 more validation in ScoreMatrix constructor	blob \| commitdiff \| diff to current
2017-02-20	gmungoc	JAL-2403 ScoreModelI now DistanceModelI, ScoreMatrix...	blob \| commitdiff \| diff to current
2017-02-17	gmungoc	JAL-2403 redundant 'implements' removed	blob \| commitdiff \| diff to current
2017-02-14	gmungoc	Parsing moved to (new) ScoreMatrixFile, drag and drop...	blob \| commitdiff \| diff to current
2017-02-13	gmungoc	JAL-2416 allow alphabet symbol (optional) in first...	blob \| commitdiff \| diff to current
2017-02-13	gmungoc	JAL-1632 JAL-2416 load score matrices from file, as...	blob \| commitdiff \| diff to current
2017-02-13	gmungoc	JAL-1632 first cut of Tree chooser dialog and ScoreMode...	blob \| commitdiff \| diff to current

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