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JAL-3141 forgot to add this file after extracting the class!
[jalview.git] / test / jalview / analysis /
2018-06-26 Jim ProcterJAL-3035 - jalview-das is no more ! tree | commitdiff
2018-06-04 gmungocJAL-3019 correctly form toRange of 'traversed' MapList tree | commitdiff
2018-03-16 gmungocMerge remote-tracking branch 'origin/releases/Release_2... tree | commitdiff
2018-03-15 gmungocJAL-2893 enabling Get Crossreferences to ENSEMBLGENOMES tree | commitdiff
2018-03-07 Jim ProcterMerge branch 'releases/Release_2_10_4_Branch' into... tree | commitdiff
2018-02-27 Jim ProcterMerge branch 'feature/JAL-2759' into merge/JAL-2759_2104 tree | commitdiff
2018-02-09 gmungocJAL-2789 avoid using transcript (with no UTR) as CDS... bug/JAL-2666 tree | commitdiff
2018-02-05 gmungocJAL-2897 more informative description on synonymous... tree | commitdiff
2018-02-05 gmungocJAL-2897 more informative description on synonymous... tree | commitdiff
2018-02-05 gmungocMerge branch 'spikes/mungo' into trialMerge tree | commitdiff
2018-02-05 gmungocJAL-2897 more informative description on synonymous... tree | commitdiff
2018-01-30 gmungocJAL-1793 update spike build to latest incl stop and... tree | commitdiff
2018-01-30 gmungocJAL-2898 show 'stop_gained' variants on peptide sequences tree | commitdiff
2018-01-30 gmungocJAL-2897 generate peptide variants for synonymous codon... tree | commitdiff
2017-11-21 kiramtJAL-2759 Remove getVisibleBlocksIterator call tree | commitdiff
2017-11-08 kiramtMerge branch 'develop' into feature/JAL-2759 tree | commitdiff
2017-10-27 gmungocJAL-1793 spike branch updated to latest tree | commitdiff
2017-10-27 gmungocMerge branch 'develop' into features/JAL-1793VCF tree | commitdiff
2017-10-26 gmungocMerge branch 'develop' into features/JAL-1793VCF tree | commitdiff
2017-10-26 Jim ProcterMerge branch 'features/JAL-2685pairwiseSeqLimits' into... tree | commitdiff
2017-10-25 Jim ProcterMerge branch 'bug/JAL-2617mappedStopCodon' into develop tree | commitdiff
2017-10-05 gmungocJAL-2738 update spikes/mungo tree | commitdiff
2017-10-05 gmungocJAL-2755 transfer chromosomal reference from transcript... tree | commitdiff
2017-10-03 gmungocJAL-2738 copy to spikes/mungo tree | commitdiff
2017-09-29 kiramtJAL-2674 finish with iterators for now tree | commitdiff
2017-09-28 kiramtJAL-2647 more iterators tree | commitdiff
2017-09-26 gmungocJAL-2738 JAL-2154 add DBRef from transcript to synthesi... tree | commitdiff
2017-09-12 gmungocJAL-2727 first pass of test of memory recovery on close all tree | commitdiff
2017-09-04 gmungocJAL-2617 unit tests for CDS + stop codon, CDS with... bug/JAL-2617mappedStopCodon tree | commitdiff
2017-08-30 gmungocJAL-2685 tweaks to output spacing, updated TestAlignSeq... tree | commitdiff
2017-06-09 gmungocJAL-2446 merged to spike branch tree | commitdiff
2017-06-01 gmungocJAL-2754 Sequence.findFeatures(fromCol, toCol) features/JAL-2754findFeaturesByColumn tree | commitdiff
2017-05-25 gmungocJAL-2557 removal of Sequence.sequenceFeatures tree | commitdiff
2017-05-25 gmungocJAL-2050 make SequenceFeature.score final, adjust const... tree | commitdiff
2017-05-22 gmungocJAL-2544 unit tests for sort by feature score tree | commitdiff
2017-05-19 gmungocJAL-2490 performant lookup of features for sorting tree | commitdiff
2017-05-19 gmungocJAL-2505 unit test for sort by feature density, Javadoc tree | commitdiff
2017-05-16 gmungocJAL-2505 set helix number as feature group in SequenceF... tree | commitdiff
2017-05-15 gmungocMerge branch 'develop' into features/JAL-2446NCList tree | commitdiff
2017-05-09 gmungocJAL-2403 use preferred factory method to create score... tree | commitdiff
2017-05-05 kiramtMerge remote-tracking branch 'origin/develop' into features/JAL-2388hiddencolumnschanges tree | commitdiff
2017-05-02 Jim ProcterJAL-2424 fixme’s removed tree | commitdiff
2017-05-02 Jim ProcterJAL-2424 update assert to correct width for normalising... tree | commitdiff
2017-05-02 Jim ProcterJAL-2424 resolved, assert updated to pass (1f != 1d) tree | commitdiff
2017-05-02 gmungocJAL-2499 JAL-2403 push 'configure for view' inside... tree | commitdiff
2017-04-24 kiramtJAL-2388 Hidden cols separated from column selection... tree | commitdiff
2017-04-11 gmungocJAL-2403 improved ScoreModelI hierarchy as per Kira... tree | commitdiff
2017-04-10 gmungocJAL-2403 unit tests for PCA.computeSimilarity, signatur... tree | commitdiff
2017-04-10 gmungocJAL-2416 test updated for reinstatement of '*' row... tree | commitdiff
2017-03-29 gmungocJAL-2416 revert to '*' not '-' in score matrix, handle... tree | commitdiff
2017-03-28 gmungocJAL-2403 JAL-2416 pairwise score unexpected symbols... tree | commitdiff
2017-03-28 gmungocJAL-2403 further test coverage for ScoreMatrix, min... tree | commitdiff
2017-03-27 gmungocJAL-2416 tidy up after switch from ' ' to '-' in score... tree | commitdiff
2017-03-27 gmungocJAL-2416 score matrix gap symbol (if any) dynamically... tree | commitdiff
2017-03-27 gmungocJAL-2416 add score model description field for tooltip... tree | commitdiff
2017-03-27 gmungocJAL-2416 use '-' not space for gap in score matrices tree | commitdiff
2017-03-24 gmungocJAL-2416 tests added for ScoreMatrix tree | commitdiff
2017-03-23 gmungocJAL-2393 updated test for removal of PIDDistanceModel tree | commitdiff
2017-02-28 gmungocJAL-1632 'includeGaps' applied to FeatureDistanceModel... tree | commitdiff
2017-02-27 gmungocJAL-2416 seqspace.scm and PIDDistanceModel replaced... tree | commitdiff
2017-02-27 gmungocJAL-838 ScoreMatrix now respects SimilarityParams! tree | commitdiff
2017-02-27 gmungocJAL-838 tests for PID calculation with parameter options tree | commitdiff
2017-02-24 gmungocJAL-838 added 'SeqSpace' PID mode, added parameters... tree | commitdiff
2017-02-24 gmungocJAL-2403 PIDModel added (wip) tree | commitdiff
2017-02-24 gmungocJAL-1483 PIDModel potential replacement for PIDDistance... tree | commitdiff
2017-02-23 gmungocJAL-2403 JAL-1483 changes to ScoreModelI hierarchy... tree | commitdiff
2017-02-21 gmungocJAL-2416 typo tree | commitdiff
2017-02-21 gmungocJAL-2416 ScoreMatrix.getMatrix() returns a defensive... tree | commitdiff
2017-02-21 gmungocJAL-2416 support roundtrip print/parse of ScoreMatrix tree | commitdiff
2017-02-21 gmungocMerge branch 'develop' into features/JAL-2393customMatrices tree | commitdiff
2017-02-21 gmungocJAL-2416 more validation in ScoreMatrix constructor tree | commitdiff
2017-02-20 gmungocJAL-2403 ScoreModelI now DistanceModelI, ScoreMatrix... tree | commitdiff
2017-02-20 gmungocJAL-2416 replaced dependency on ResidueProperties with... tree | commitdiff
2017-02-17 gmungocJAL-2416 score models now held in order added tree | commitdiff
2017-02-17 gmungocJAL-2403 extract method refactoring of FeatureScoreMode... tree | commitdiff
2017-02-14 gmungocParsing moved to (new) ScoreMatrixFile, drag and drop... tree | commitdiff
2017-02-13 gmungocJAL-2416 allow alphabet symbol (optional) in first... tree | commitdiff
2017-02-13 gmungocJAL-1632 JAL-2416 load score matrices from file, as... tree | commitdiff
2017-02-06 gmungocJAL-2379 computePairwiseScores() moved to ScoreMatrix tree | commitdiff
2017-02-03 gmungocJAL-2379 'direct' pairwise score calculation for PCA... tree | commitdiff
2017-01-16 gmungocJAL-1270 class renamed tree | commitdiff
2017-01-16 gmungocJAL-1270 tweaks to AlignmentGenerator / client class tree | commitdiff
2017-01-12 gmungocJAL-1270 renamed AlignmentGenerator, and added peptide... tree | commitdiff
2016-11-28 gmungocMerge branch 'develop' into trialMerge tree | commitdiff
2016-11-28 tcofoegbuMerge branch 'features/JAL-2326_JOptionPane-refactoring... tree | commitdiff
2016-11-25 gmungocMerge branch 'develop' into trialMerge tree | commitdiff
2016-11-24 tcofoegbuJAL-2326 added setup method for JvOptionPane in all... features/JAL-2326_JOptionPane-refactoring tree | commitdiff
2016-11-24 Jim ProcterJAL-2325 apply license to new source files tree | commitdiff
2016-11-23 Jim ProcterMerge branch 'bug/JAL-2323disulfideOverview' into develop tree | commitdiff
2016-11-22 Jim ProcterMerge branch 'features/JAL-1738_JAL-345_selectionfromhi... tree | commitdiff
2016-11-21 Jim ProcterJAL-2335 failing test for FeatureRendererModel.findFeat... tree | commitdiff
2016-11-17 gmungocJAL-98 ProfilesI container for profiles for columns tree | commitdiff
2016-11-04 gmungocJAL-966 JAL-1854 removed redundant methods / modifiers... tree | commitdiff
2016-11-04 gmungocJAL-2302 unit tests added for Finder tree | commitdiff
2016-11-02 gmungocJAL-98 JAL-1854 encapsulate 'magic number' threshold... tree | commitdiff
2016-11-02 gmungocJAL-98 ProfileI interface for Profile tree | commitdiff
2016-11-02 gmungocJAL-98 Profile and ResidueCount moved from analysis... tree | commitdiff
2016-11-01 gmungocConservation now using ResidueCount; tests added tree | commitdiff
2016-10-28 Jim ProcterJAL-966 JAL-1738 JAL-345 interfaces for SearchResults... tree | commitdiff
2016-10-25 gmungocJAL-98 minor fixes to / tests for annotation derivation tree | commitdiff
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