Uses of Interface
pal.mep.DeltaModel
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Packages that use DeltaModel Package Description pal.mep Classes for the analysis of "measurably evolving populations" (mep).pal.supgma -
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Uses of DeltaModel in pal.mep
Methods in pal.mep that return DeltaModel Modifier and Type Method Description static DeltaModelDeltaModel.Utils. getDisjointBased(DeltaModel primaryModel, DeltaModel subgroupModel, TimeOrderCharacterData subgroupTOCD)static DeltaModelDeltaModel.Utils. getMutationRateModelBased(MutationRateModel.Factory mepFactory)For interfacing with time based mutation rate modelsstatic DeltaModelDeltaModel.Utils. getUntimedBased()For serial sampled analysis when no time information is available.static DeltaModelDeltaModel.Utils. getUntimedBased(double[] initalDeltas)For serial sampled analysis when no time information is available.Methods in pal.mep with parameters of type DeltaModel Modifier and Type Method Description static DeltaModelDeltaModel.Utils. getDisjointBased(DeltaModel primaryModel, DeltaModel subgroupModel, TimeOrderCharacterData subgroupTOCD) -
Uses of DeltaModel in pal.supgma
Constructors in pal.supgma with parameters of type DeltaModel Constructor Description SUPGMADistanceMatrix(DistanceMatrix raw, TimeOrderCharacterData tocd, DeltaModel deltaModel)Uses date/time information and a constant rate to correct distance matrices.SUPGMATree(DistanceMatrix m, TimeOrderCharacterData tocd, DeltaModel deltaModel, boolean allowNegatives, ClusterTree.ClusteringMethod cm)constructor SUPGMA tree
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