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r1167
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litNet/ 1007 (9 years ago) by hstehr: refactoring: moved casp, deltaRank, embed, graphAveraging, ppi, sadp to owl
ppi/ 1007 (9 years ago) by hstehr: refactoring: moved casp, deltaRank, embed, graphAveraging, ppi, sadp to owl
embed/ 1018 (9 years ago) by hstehr: removing a warning in owl.embed.contactmaps.Demes
tests/ 1042 (9 years ago) by jmduarteg: New SiftsConnection and SiftsFeature classes for SIFTS pdb to uniprot mapping. Implemented the HasFeatures interface in Pdb. In the future we can hopefully use that mechanism for all features (sec. strucuture, scop and so on)
deltaRank/ 1057 (9 years ago) by matt4077: add psi/phi constraints from secondary structure to tinker reconstructions
decoyScoring/ 1059 (9 years ago) by jmduarteg: Fixed java doc
graphAveraging/ 1066 (9 years ago) by hstehr: new methods needed for CCCP: RIGraph.addEdgeIJ(i,j,weight), RIGEnsembl.loadFromDirectory(), GraphAverager.addZeroEdges(), SecondaryStructure.print()
sadp/ 1084 (9 years ago) by matt4077: renamed conflicting ContactMap class.
gmbp/ 1163 (9 years ago) by jmduarteg: Got rid of german text (was causing a warning in compilation), anyway there shouldn't be any german... unless we start i8nsing.
core/ 1166 (9 years ago) by jmduarteg: Fixed bug: not allowing anymore the presence of gaps when choosing the representative CDS to uniprot match. Now the nucleotide alignments should be always correct (before they were shifted if there were gaps in CDS-to-uniprot)
casp/ 1167 (9 years ago) by hstehr: updated casp benchmarking classes for Casp9, still missing: update group suffix
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