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Default avatar chuttenh
[svn r429] Add v2.0 tag
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v2.0
Default avatar chuttenh
[svn r428] Fix minor logging and Counter code consistency issues
Default avatar chuttenh
[svn r427] Fix OntoShell bug in calculating indirect annotation counts
Default avatar chuttenh
[svn r425] Update Linux build
Default avatar chuttenh
[svn r424] Add all missing documentation (primarily COALESCE and SVDer)
Default avatar chuttenh
[svn r423] Add single-channel MA normalization (off by default) to COALESCE
Default avatar chuttenh
[svn r422] Add Linux build and tweaks for SVDer
Default avatar chuttenh
[svn r421] Add SVDer from AJ Sedgewick's JP
Default avatar chuttenh
[svn r420] Add minimum effect size for COALESCE conditions and motifs
Default avatar chuttenh
[svn r419] Fix PCLPlotter.ggo merge issue
Default avatar chuttenh
[svn r418] Add missing motif-related ggo file updates to PCLPlotter
Default avatar chuttenh
[svn r417] Remove excessive missing value warnings from CFASTA
Default avatar chuttenh
[svn r416] Fix one more potential bug in CCoalesceHistogramSet::Initialize
Default avatar chuttenh
[svn r415] Fix deadly COALESCE bug in CCoalesceGeneScores::Grow
Default avatar chuttenh
[svn r414] Fix a silly bug introduced by the tokenization change
Default avatar chuttenh
[svn r413] Fix a few Linux burps
Default avatar chuttenh
[svn r411] Add maximum motif cap for COALESCE
Default avatar chuttenh
[svn r410] Add missing PCLPlotter directory
Default avatar chuttenh
[svn r409] Update count matrix to short rather than char in Combiner to handle more MAs
Default avatar chuttenh
[svn r408] Update svm_light to svm_perf
Default avatar chuttenh
[svn r407] Fix a horrific bug in runtime COALESCE motif merging
Default avatar mark
[svn r405] improved gengetopt configure support, rebuilt some out-of-date cmdline files
Default avatar chuttenh
[svn r404] Add cluster trimming to COALESCE
Default avatar chuttenh
[svn r403] Fix CClustKMeans to work with missing precomputed similarity values
Default avatar chuttenh
[svn r402] Fix a dumb typo that broke PCL parsing
Default avatar chuttenh
[svn r401] Fix a Linux quibble in CPSTImpl
Default avatar chuttenh
[svn r400] Add recursive GetChildren and GetParents to IOntology/COntologyImpl
Default avatar chuttenh
[svn r399] Fix a Linux-specific typo in COntologyImpl
Default avatar chuttenh
[svn r398] Improve COALESCE behavior with ZScore instead of CohensD
Default avatar chuttenh
[svn r397] Improve RC removal during PST->PWM conversion
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