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Revision 1147 - Directory Listing
Modified Mon Jul 5 08:35:15 2010 UTC (12 years, 3 months ago) by jmduarteg
Implemented logging with log4j library
Revision 1143 - Directory Listing
Modified Thu Jul 1 10:02:53 2010 UTC (12 years, 3 months ago) by jmduarteg
New methods to check for reliability of positions with respect of the CDS matching
Revision 1140 - Directory Listing
Modified Tue Jun 29 08:49:34 2010 UTC (12 years, 3 months ago) by jmduarteg
Fixed bug: now nucleotide alignment is in same order as protein alignment
Revision 1116 - Directory Listing
Modified Thu Jun 17 09:48:22 2010 UTC (12 years, 3 months ago) by jmduarteg
Now properly translating all frames and finding the best translation match in checkEmblCDSMatching. New class doing all the matching of protein to CDS.
Revision 1095 - Directory Listing
Modified Wed Jun 2 15:06:46 2010 UTC (12 years, 4 months ago) by jmduarteg
Fixed bug: was nullpointing when the letter encountered in counting the column was unknown.
Revision 1094 - Directory Listing
Modified Wed Jun 2 13:19:21 2010 UTC (12 years, 4 months ago) by jmduarteg
Implemented reduced alphabets in AminoAcid class and modified entropy calculation to allow reduced alphabets.
Revision 1074 - Directory Listing
Modified Fri May 21 10:02:24 2010 UTC (12 years, 4 months ago) by jmduarteg
Implemented profile counting and entropy calculation for alignment.
Revision 1072 - Directory Listing
Modified Thu May 20 13:59:25 2010 UTC (12 years, 4 months ago) by jmduarteg
Implemented methods to run a tcoffee alignment. Now also retrieving uniprot sequences via the uniprot api.
Revision 1054 - Directory Listing
Modified Wed Apr 28 13:37:00 2010 UTC (12 years, 5 months ago) by jmduarteg
Minor changes, couple of new methods.
Revision 1051 - Directory Listing
Modified Tue Apr 27 15:34:38 2010 UTC (12 years, 5 months ago) by jmduarteg
Minor fix to java docs
Revision 1027 - Directory Listing
Modified Fri Apr 16 10:03:57 2010 UTC (12 years, 5 months ago) by jmduarteg
Fixed some docs and indentation
Revision 1010 - Directory Listing
Modified Wed Mar 31 16:05:52 2010 UTC (12 years, 6 months ago) by hstehr
refactoring: removed a warning in MultipleSequenceAlignment and deleted obsolete directory src/tests
Revision 1009 - Directory Listing
Added Wed Mar 31 15:50:04 2010 UTC (12 years, 6 months ago) by hstehr
refactoring: moved many many classes to more appropriate packages; created new packages owl.core.sequence.alignment, owl.core.structure.alignment, owl.core.structure.features