Merge remote-tracking branch 'origin/tasks/JAL-3035_remove_dasobert_dependency' into...
[jalview.git] / src / jalview / analysis / AAFrequency.java
2017-10-03 gmungocJAL-2738 copy to spikes/mungo
2017-08-21 gmungocMerge branch 'develop' into features/JAL-2446NCList features/JAL-2446NCList
2017-08-16 Jim ProcterJAL-2418 source formatting
2017-06-14 gmungocJAL-2598 Sequence.getSequence return a copy of the...
2017-06-09 gmungocJAL-2446 merged to spike branch
2017-05-03 Jim ProcterJAL-1933 show occupancy in tooltip for row
2017-04-27 Jim ProcterJAL-1933 shade occupancy from light grey to black for...
2017-04-27 Jim ProcterJAL-1933 don’t show symbol counts under histogram ...
2017-03-16 Jim ProcterJAL-1933 refactor parameter for code clarity
2016-12-04 Jim ProcterJAL-1933 show occupancy count as a tooltip
2016-12-04 Jim ProcterJAL-1933 switch from gap count to occupancy
2016-12-02 gmungocJAL-1933 gap value as description; minor formatting
2016-12-01 Jim ProcterJAL-1933 update the bounds for the Gap annotation row...
2016-12-01 Jim ProcterJAL-1933 basic hack to get gap counts shown as an annot...
2016-11-17 gmungocJAL-98 ProfilesI container for profiles for columns
2016-11-02 gmungocJAL-98 ProfileI interface for Profile
2016-11-02 gmungocJAL-98 Profile and ResidueCount moved from analysis...
2016-10-25 gmungocJAL-98 minor fixes to / tests for annotation derivation
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch
2016-10-25 gmungocJAL-98 javadoc / comments updated
2016-10-24 gmungocJAL-98 fixme comment removed - nothing to do
2016-10-06 Jim ProcterJAL-2089 Merge branch releases/Release_2_10_Branch...
2016-10-03 gmungocJAL-98 use Profile to store consensus, ResidueCount...
2016-09-26 gmungocJAL-98 don't include gaps in maxResidue!
2016-09-23 gmungocJAL-98 performance tweaks to use of SparseIntArray
2016-09-23 gmungocJAL-98 first working version
2016-09-23 gmungocJAL-98 use SparseIntArray (wip)
2016-07-20 gmungocJAL-2023 JAL-1681 fixed bug in computing '+' for co...
2015-12-22 gmungocJAL-653 AlignedCodonFrame internal refactor, merge...
2015-10-16 Jim ProcterJAL-1925 update source version in license Release_2_9_0b2
2015-10-08 Jim ProcterJAL-1894 update year/version in copyright
2015-09-10 Jim ProcterJAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...
2015-09-10 Jim ProcterJAL-1645 source formatting and organise imports
2015-07-08 gmungocJAL-1759 merge from develop
2015-07-01 gmungocJAL-1681 more condensed tooltip where codons share...
2015-05-29 Jim ProcterJAL-1755 fix for NPE when setting up temporary variables
2015-03-26 gmungocMerge develop to Release_2_8_3_Branch
2015-03-06 Jim ProcterJAL-1683 replace year/version strings with tokens in...
2014-12-15 Jim ProcterJAL-1620 version bump and release notes
2014-06-06 Jim ProcterJAL-1517 source formatting
2014-06-06 Jim ProcterJAL-1517 fix copyright for 2.8.2
2014-06-05 Jim ProcterJAL-1517 update copyright to version 2.8.2
2014-05-22 Jim ProcterJAL-1503 update version in GPL header
2014-05-01 Jim Proctermake sure valid value for non-gapped calculation with...
2014-02-03 Jim ProcterMerge branch 'Release_2_8_0b1_Branch' into try_r20b1_merge
2014-01-29 Jim ProcterJAL-1432 updated copyright notices
2013-10-16 Jim ProcterJAL-1395 do not calculate non-gap consensus when no...
2013-09-03 Jim ProcterJAL-1373 tweak precision calculation so alignments...
2013-09-03 Jim ProcterJAL-920 compute a consensus for single sequence
2013-09-02 Jim ProcterJAL-1373 generate percentages with appropriate precision
2013-09-02 Jim ProcterJAL-1373 pass size of sequence set to consensus renderi...
2012-10-22 jprocterJalview 2.8 Source Header
2012-10-03 jprocterformatting
2012-06-07 jprocterJAL-967, JAL-1114, JAL-1115 - modified render and calcu...
2012-05-31 jprocterformatting
2012-05-30 jprocterJAL-1114 - refactor methods handling Vectors and Hashta...
2011-10-11 jprocternormalised logo rendering (JAL-958)
2011-10-10 jprocterupdate author list in license for (JAL-826)
2011-09-27 jprocterapply version 2.7 copyright
2011-07-31 janengelhardtJAL-885; StructureConservation row is displayed at...
2011-07-29 janengelhardtJAL-885; Implementation of StructureFrequency.java...
2010-09-23 jprocterNPE race condition alert - see JAL-661
2010-09-23 jprocterapply jalview code style
2010-09-23 jprocterJalview 2.6 source licence
2010-09-02 jprocterfix occasional arrayIndexOutOfBounds when sequences...
2010-06-29 jprocterpatch for npe that occurs for importing Jalview project...
2010-04-30 jprocterjalview 2.5 release banner
2009-08-21 jprocterstore symbol profile and extract it for display
2009-07-24 jproctercomplete alignment annotation row procedure
2009-06-08 jprocterapply gpl development license
2008-09-04 jproctermerge from 2_4_Release branch
2007-02-07 amwaterhouseFormatting
2007-01-30 amwaterhouseAny character non aa or nucleotide is a space
2006-12-05 amwaterhousesequence is char []
2006-11-28 amwaterhouseoff by one group consensus calculation
2006-11-15 amwaterhouseCheck if groupWidth is greater than sequence width
2006-10-10 amwaterhouseMaxResidue must be at least 2
2006-10-10 amwaterhousestatic final strings for consensus keys
2006-10-06 amwaterhouseAAFrequency optimized
2006-08-21 amwaterhouseheader updated
2005-09-30 amwaterhouseRemove redundancy in Eclipse
2005-08-23 amwaterhouseFinalize calculate method
2005-08-18 amwaterhouseCharacter methods don't exist in java 1.1
2005-08-18 jproctervarious case sensitivity bugs fixed in residue comparis...
2005-08-15 amwaterhouseCalculate gap and nogap ratio here
2005-06-30 amwaterhouseFormatting changes
2005-06-10 amwaterhouseRemove imports
2005-06-08 amwaterhouseFormatted source
2005-06-08 amwaterhouseGPL license added
2005-04-13 jprocterGap characters are now properly detected in the conserv...
2005-04-07 amwaterhousecheckfor gap characters
2004-11-02 amwaterhouseJalview Imported Sources start