thresholdLikelihood​.m

Version 1.0.0.0 (3.9 KB) by David Bryant
Computes likelihood of a phylogenetic tree under the Threshold model of Wright and Fisher.
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Computes the likelihood of a phylogeny (specified using a Phytree object) from binary character data, according to the threshold model of Felsenstein: an unobserved liability is assumed to evolve according to a Brownian process operating down the branch - we only observe whether these liabilities are positive or negative at each of the tips.
We compute the likelihood using the quadrature + dynamic programming algorithm described in
Hiscott, G., Fox, C. Parry, M. and Bryant, D. Efficient recycled algorithms for quantitative trait models on
phylogenies. http://arxiv.org/abs/1512.00890

Cite As

David Bryant (2024). thresholdLikelihood.m (https://www.mathworks.com/matlabcentral/fileexchange/55002-thresholdlikelihood-m), MATLAB Central File Exchange. Retrieved .

MATLAB Release Compatibility
Created with R2015b
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thresholdLikelihood/

Version Published Release Notes
1.0.0.0