Examples with BayesianBridgeShrinkageOperator dr.inference.operators.shrinkage.BayesianBridgeShrinkageOperator used on opensource projects

Example 1 with BayesianBridgeShrinkageOperator

use of dr.inference.operators.shrinkage.BayesianBridgeShrinkageOperator in project beast-mcmc by beast-dev.

the class BayesianBridgeShrinkageOperatorParser method parseXMLObject.

@Override
public Object parseXMLObject(XMLObject xo) throws XMLParseException {
    double weight = xo.getDoubleAttribute(WEIGHT);
    BayesianBridgeStatisticsProvider bayesianBridge = (BayesianBridgeStatisticsProvider) xo.getChild(BayesianBridgeStatisticsProvider.class);
    if (bayesianBridge == null) {
        bayesianBridge = parseAutoCorrelatedRates(xo);
    }
    DistributionLikelihood prior = (DistributionLikelihood) xo.getChild(DistributionLikelihood.class);
    if (!(prior.getDistribution() instanceof GammaDistribution)) {
        throw new XMLParseException("Gibbs sampler only implemented for a gamma distributed global scale");
    }
    GammaDistribution globalScalePrior = (GammaDistribution) prior.getDistribution();
    return new BayesianBridgeShrinkageOperator(bayesianBridge, globalScalePrior, weight);
}