Package | Description |
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Likelihood |
Provides classes for calculating the likelihood of a tree given a model and
an alignment.
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Optimizers |
Provides classes for optimising a likelihood.
|
Class and Description |
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Calculator
Calculates the likelihood for different parameter values.
|
Likelihood
Stores the results of a likelihood calculation.
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Likelihood.LikelihoodException
Exception related to a likelihood calculation
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Likelihood.NodeLikelihood
Stores the results of a likelihood claculation for a single node in a tree.
|
Likelihood.RateLikelihood
Stores the result of the likelihood calculations for a single site and
a single rate class.
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Likelihood.SiteLikelihood
Stored the result of a likelihood calculation for a single site
|
Probabilities
Stores the values of each transition, frequency etc for one set of parameters.
|
Class and Description |
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Calculator
Calculates the likelihood for different parameter values.
|
Likelihood
Stores the results of a likelihood calculation.
|