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[jalview.git] / src / jalview / analysis / PCA.java

2017-10-03	gmungoc	JAL-2738 copy to spikes/mungo	blob \| commitdiff
2017-08-16	Jim Procter	JAL-2418 source formatting	blob \| commitdiff
2017-06-09	gmungoc	JAL-2446 merged to spike branch	blob \| commitdiff \| diff to current
2017-04-11	gmungoc	JAL-2403 improved ScoreModelI hierarchy as per Kira...	blob \| commitdiff \| diff to current
2017-04-10	gmungoc	JAL-2403 unit tests for PCA.computeSimilarity, signatur...	blob \| commitdiff \| diff to current
2017-04-10	gmungoc	JAL-2403 removed remaining jvCalcMode references from PCA	blob \| commitdiff \| diff to current
2017-03-23	gmungoc	JAL-2397 scale PCA by PID to alignment width to match...	blob \| commitdiff \| diff to current
2017-03-23	gmungoc	JAL-2393 code tidy and comments, PIDDistanceModel depre...	blob \| commitdiff \| diff to current
2017-02-27	gmungoc	JAL-1632 add score model params to PCAModel and PCA...	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-1403 preserve range of distance scores for similarity	blob \| commitdiff \| diff to current
2017-02-24	gmungoc	JAL-2403 JAL-1483 push 'reverseRange' inside Matrix	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	Merge branch 'develop' into features/JAL-2393customMatrices	blob \| commitdiff \| diff to current
2017-02-20	gmungoc	JAL-2403 ScoreModelI now DistanceModelI, ScoreMatrix...	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
2017-02-07	gmungoc	JAL-2379 removed unused commented code	blob \| commitdiff \| diff to current
2017-02-06	gmungoc	JAL-2379 computePairwiseScores() moved to ScoreMatrix	blob \| commitdiff \| diff to current
2017-02-03	gmungoc	JAL-2379 'direct' pairwise score calculation for PCA...	blob \| commitdiff \| diff to current
2017-01-26	gmungoc	Merge branch 'develop' into features/JAL-2379pcaMemory	blob \| commitdiff \| diff to current
2017-01-26	gmungoc	JAL-2380 code tidy after review	blob \| commitdiff \| diff to current
2017-01-17	gmungoc	JAL-2379 use SparseMatrix for encoded sequences, tidy...	blob \| commitdiff \| diff to current
2016-10-25	Jim Procter	JAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch	blob \| commitdiff \| diff to current
2015-10-16	Jim Procter	JAL-1925 update source version in license Release_2_9_0b2	blob \| commitdiff \| diff to current
2015-10-08	Jim Procter	JAL-1894 update year/version in copyright	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...	blob \| commitdiff \| diff to current
2015-09-10	Jim Procter	JAL-1645 source formatting and organise imports	blob \| commitdiff \| diff to current
2015-03-06	Jim Procter	JAL-1683 replace year/version strings with tokens in...	blob \| commitdiff \| diff to current
2014-12-15	Jim Procter	JAL-1620 version bump and release notes	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 source formatting	blob \| commitdiff \| diff to current
2014-06-06	Jim Procter	JAL-1517 fix copyright for 2.8.2	blob \| commitdiff \| diff to current
2014-06-05	Jim Procter	JAL-1517 update copyright to version 2.8.2	blob \| commitdiff \| diff to current
2014-05-22	Jim Procter	JAL-1503 update version in GPL header	blob \| commitdiff \| diff to current
2014-04-21	Jim Procter	JAL-1473 refactor score matrices and tree score calcula...	blob \| commitdiff \| diff to current
2014-02-25	Jim Procter	JAL-1454 catch exceptions during calculation and report...	blob \| commitdiff \| diff to current
2014-01-29	Jim Procter	JAL-1432 updated copyright notices	blob \| commitdiff \| diff to current
2012-10-22	jprocter	Jalview 2.8 Source Header	blob \| commitdiff \| diff to current
2012-10-03	jprocter	formatting	blob \| commitdiff \| diff to current
2012-06-15	jprocter	formatting	blob \| commitdiff \| diff to current
2012-06-15	jprocter	JAL-1125 option to switch between Jalview and SeqSpace...	blob \| commitdiff \| diff to current
2012-06-15	jprocter	Merge branch 'JAL-1013_pca_rna_dna' into develop	blob \| commitdiff \| diff to current
2011-12-08	jprocter	(JAL-1013) allow sequence type to be specified enabling...	blob \| commitdiff \| diff to current
2011-10-10	jprocter	update author list in license for (JAL-826)	blob \| commitdiff \| diff to current
2011-09-27	jprocter	apply version 2.7 copyright	blob \| commitdiff \| diff to current
2010-09-23	jprocter	apply jalview code style	blob \| commitdiff \| diff to current
2010-09-23	jprocter	Jalview 2.6 source licence	blob \| commitdiff \| diff to current
2010-08-18	jprocter	output the eigenvector matrix in full: JAL-616	blob \| commitdiff \| diff to current
2010-04-30	jprocter	jalview 2.5 release banner	blob \| commitdiff \| diff to current
2009-06-08	jprocter	apply gpl development license	blob \| commitdiff \| diff to current
2008-09-04	jprocter	merge from 2_4_Release branch	blob \| commitdiff \| diff to current
2007-02-07	amwaterhouse	Formatting	blob \| commitdiff \| diff to current
2006-08-21	amwaterhouse	header updated	blob \| commitdiff \| diff to current
2006-07-18	amwaterhouse	Takes string[] instead of seq[]	blob \| commitdiff \| diff to current
2005-09-23	amwaterhouse	Capture output as details	blob \| commitdiff \| diff to current
2005-09-08	amwaterhouse	REmove unnecessary imports	blob \| commitdiff \| diff to current
2005-06-30	amwaterhouse	Formatting changes	blob \| commitdiff \| diff to current
2005-06-08	amwaterhouse	Formatted source	blob \| commitdiff \| diff to current
2005-06-08	amwaterhouse	GPL license added	blob \| commitdiff \| diff to current
2005-05-25	jprocter	tidied up system.out messages and moved many to stderr.	blob \| commitdiff \| diff to current
2005-01-12	jprocter	random change 3	blob \| commitdiff \| diff to current
2005-01-12	jprocter	another dummy.	blob \| commitdiff \| diff to current
2005-01-12	jprocter	irrelevant comment.	blob \| commitdiff \| diff to current
2004-11-02	amwaterhouse	Jalview Imported Sources start	blob \| commitdiff \| diff to current

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