Uses of Interface
pal.mep.DeltaModel

Packages that use DeltaModel
pal.mep Classes for the analysis of "measurably evolving populations" (mep). 
pal.supgma   
 

Uses of DeltaModel in pal.mep
 

Methods in pal.mep that return DeltaModel
static DeltaModel DeltaModel.Utils.getDisjointBased(DeltaModel primaryModel, DeltaModel subgroupModel, TimeOrderCharacterData subgroupTOCD)
           
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
static DeltaModel DeltaModel.Utils.getDisjointBased(DeltaModel primaryModel, DeltaModel subgroupModel, TimeOrderCharacterData subgroupTOCD)
           
 

Uses of DeltaModel in pal.supgma
 

Constructors in pal.supgma with parameters of type DeltaModel
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