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walterxie avatar walterxie commented on July 25, 2024

Cite path sampling (Lartillot and Philippe, 2006) to beast.inference.PathSamplingStep and beast.inference.PairedPathSamplingStep.
Cite generalized stepping-stone sampling (Fan et al., 2011) to beast.gss.GeneralisedSteppingStoneStep.

The fix will be available after a new release.

from model-selection.

walterxie avatar walterxie commented on July 25, 2024

After the new release, it will show:

====== Package 24 : MODEL_SELECTION ======

Load classes from : ~/Library/Application Support/BEAST/2.5/MODEL_SELECTION/lib/MODEL_SELECTION.addon.jar

beast.gss.GeneralisedSteppingStoneStep
Xie, W., Lewis, P. O., Fan, Y., Kuo, L., & Chen, M. H. (2011).
Improving marginal likelihood estimation for Bayesian phylogenetic model selection.
Systematic biology, 60(2), 150-160.
10.1093/sysbio/syq085

Description : Calculate marginal likelihood through generalised path sampling for a single step

beast.inference.PairedPathSamplingStep
Lartillot, N., & Philippe, H. (2006).
Computing Bayes factors using thermodynamic integration.
Systematic biology, 55(2), 195-207.
10.1080/10635150500433722

Description : Calculate marginal likelihood through path sampling for a single step when comparing two models

beast.inference.PathSamplingStep
Lartillot, N., & Philippe, H. (2006).
Computing Bayes factors using thermodynamic integration.
Systematic biology, 55(2), 195-207.
10.1080/10635150500433722

Description : Calculate marginal likelihood through path sampling for a single step

Find total 3 cited BEAST classes.

from model-selection.

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