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Revision 536 - Directory Listing
Modified Wed Feb 13 17:44:40 2008 UTC (12 years, 1 month ago) by duarte
Fixed GraphAverager: wasn't working since we introduced JUNG. 
Also added some better output in checkSequences() when sequence don't match between alignment/graphs. Now we take the 2 sequences calculate a pairwise alignment (using jaligner) and output it. This is useful for picking up unobserves and similars.
Revision 517 - Directory Listing
Modified Tue Jan 15 13:19:36 2008 UTC (12 years, 2 months ago) by duarte
Changed Alignment class so that both alignment and sequence indexing are starting at 1 (before alignment indices were starting at 0). Also mapping is now done through arrays not maps.
Changed all other classes using Alignment to accommodate this. 
NOTE: graph averaging hasn't been tested after the change
Revision 492 - Directory Listing
Modified Wed Jan 2 13:18:57 2008 UTC (12 years, 3 months ago) by duarte
Copied from: branches/aglappe-jung/graphAveraging revision 491
Copied the aglappe-jung branch into trunk.

Revision 483 - Directory Listing
Modified Wed Dec 19 14:25:30 2007 UTC (12 years, 3 months ago) by stehr
Original Path: branches/aglappe-jung/graphAveraging
added methods to calculate and filter by consensus scores
Revision 459 - Directory Listing
Added Thu Dec 6 15:05:43 2007 UTC (12 years, 4 months ago) by stehr
Original Path: branches/aglappe-jung/graphAveraging
moved GraphAverager to subpackage, added removeVertex function to RIGraph and AIGraph, added getEdgeFromSerials and containsEdgeIJ functions to ProtStructGraph