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See:
Description
Interface Summary | |
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LikelihoodEvaluator | |
LikelihoodEvaluator.MLResult | |
ReplicateLikelihoodEvaluator | |
TopologyTestEngine.StatisticsHandler | |
TopologyTestEngine.TestResult | |
TopologyTestEngine.TopologyPool |
Class Summary | |
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BootstrapStatistics | computation of bootstrap estimators (BIAS, SD, VAR, CI) given a statistic theta and corresponding bootstrap replicates. |
ChiSquareDistribution | chi-square distribution (distribution of sum of squares of n uniform random variables) (Parameter: n; mean: n; variance: 2*n) The chi-square distribution is a special case of the Gamma distribution (shape parameter = n/2.0, scale = 2.0). |
ChiSquareTest | chi-square test |
ContigencyTable | Class for permuting contigency tables and determining the likelihood of the table. |
DiscreteStatistics | simple discrete statistics (mean, variance, cumulative probability, quantiles etc.) |
ExponentialDistribution | exponential distribution. |
FisherExact | This does a one tail fisher exact test. |
GammaDistribution | gamma distribution. |
GeneralTopologyPool | |
KishinoHasegawaTest | Kishino-Hasegawa-(Templeton)-Test (1989, 1983) to compare a set of evolutionary hypotheses |
LikelihoodEvaluator.SimpleMLResult | |
LikelihoodEvaluator.Utils | |
LikelihoodRatioTest | Likelihood ratio test based on chi-square statistics |
ModelSupport | Computes Akaike weights and expected Akaike weights (relative evidence, expected relative evidence) for a set of models and computes corresponding confidence sets |
NormalDistribution | normal distribution (pdf, cdf, quantile) |
ParetoDistribution | Pareto distribution (scale-free distribution without characteristic length scale). |
PenalizedLikelihood | Penalized likelihood criteria |
RELLTopologyPool | |
ReplicateLikelihoodEvaluator.Utils | |
ShimodairaHasegawaStatistics | Title: ShimodairaHasegawaStatistics |
ShimodairaHasegawaTest | Shimodaira-Hasegawa-Test (1999) to compare a set of evolutionary hypotheses |
TopologyTestEngine |
Classes with useful for statistics (normal distribution, Gamma distribution, chi-square distribution, exponential distribution, likelihood-ratio test, chi-square test, descriptive statistics, bootstrap estimators etc.)
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