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