Revision 372 - (view) (annotate) - [select for diffs]
Modified Wed Oct 31 10:20:22 2007 UTC (16 years, 11 months ago) by lpetzo
File length: 21051 byte(s)
Diff to previous 332

Revision 332 - (view) (annotate) - [select for diffs]
Modified Mon Oct 1 16:20:06 2007 UTC (17 years ago) by stehr
File length: 11703 byte(s)
Diff to previous 329

added constructor for trivial alignment, renamed getSequence to getAlignedSequence

Revision 329 - (view) (annotate) - [select for diffs]
Modified Mon Oct 1 15:41:28 2007 UTC (17 years ago) by duarte
File length: 10409 byte(s)
Diff to previous 248

Added GraphAverager class and PredEval class. GraphAverager copied from HomologyPredictor (in CMPredict): doing the averaging correctly now
Added method evaluatePrediction to Graph
Some refactoring in Alignment and better javadocs

Revision 248 - (view) (annotate) - [select for diffs]
Modified Sat Aug 4 17:50:00 2007 UTC (17 years, 1 month ago) by duarte
File length: 9881 byte(s)
Diff to previous 247

Added method hasTag

Revision 247 - (view) (annotate) - [select for diffs]
Modified Sat Aug 4 17:07:23 2007 UTC (17 years, 1 month ago) by duarte
File length: 9657 byte(s)
Diff to previous 246

Made regex a constant and added | and \\-

Revision 246 - (view) (annotate) - [select for diffs]
Modified Sat Aug 4 17:00:58 2007 UTC (17 years, 1 month ago) by duarte
File length: 9572 byte(s)
Diff to previous 245

Doing now everythin with maps (using seqTags) rather than arrays. Cleaned up, refactored, using more consistent naming

Revision 245 - (view) (annotate) - [select for diffs]
Modified Sat Aug 4 15:40:20 2007 UTC (17 years, 1 month ago) by duarte
File length: 10110 byte(s)
Diff to previous 244

Added reverse map (from sequences serials to alignment serials) and did a bit of refactoring

Revision 244 - (view) (annotate) - [select for diffs]
Added Wed Aug 1 14:34:36 2007 UTC (17 years, 2 months ago) by duarte
File length: 8680 byte(s)

Initial commit of Alignmnent, a class representing a multiple sequence alignment