Examples with TKF91Model dr.oldevomodel.indel.TKF91Model used on opensource projects

Example 1 with TKF91Model

use of dr.oldevomodel.indel.TKF91Model in project beast-mcmc by beast-dev.

the class TKF91LikelihoodParser method parseXMLObject.

public Object parseXMLObject(XMLObject xo) throws XMLParseException {
    TreeModel tree = (TreeModel) xo.getChild(TreeModel.class);
    Alignment alignment = (Alignment) xo.getChild(Alignment.class);
    GammaSiteModel siteModel = (GammaSiteModel) xo.getChild(GammaSiteModel.class);
    TKF91Model tkfModel = (TKF91Model) xo.getChild(TKF91Model.class);
    return new TKF91Likelihood(tree, alignment, siteModel, tkfModel);
}

Example 2 with TKF91Model

use of dr.oldevomodel.indel.TKF91Model in project beast-mcmc by beast-dev.

the class TKF91ModelParser method parseXMLObject.

public Object parseXMLObject(XMLObject xo) throws XMLParseException {
    Parameter lengthDistParameter = (Parameter) xo.getElementFirstChild(TKF91_LENGTH_DIST);
    Parameter deathParameter = (Parameter) xo.getElementFirstChild(DEATH_RATE);
    Units.Type units = XMLUnits.Utils.getUnitsAttr(xo);
    return new TKF91Model(lengthDistParameter, deathParameter, units);
}