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Bayesian Skyline Plot Upper Limit

Thu, 01/29/2015 - 07:14 — arambaut

BEAST Documentation->Tutorials->Bayesian Skyline Plot Upper Limit

Setting an upper limit for population size in a Bayesian Skyline plot analysis

To set an upper limit, simply add an upper attribute to the populationSizes parameter in the generalizedSkylineLikelihood element:

	<generalizedSkyLineLikelihood id="skyline">
		<populationSizes>
			<parameter id="skyline.popSize" dimension="10" value="100.0" lower="0.0" upper="1e7"/>
		</populationSizes>
		<groupSizes>
			<parameter id="skyline.groupSize" dimension="10" value="1.0" lower="1.0"/>
		</groupSizes>
		<populationTree>
			<treeModel idref="treeModel"/>
		</populationTree>
	</generalizedSkyLineLikelihood>

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