#55 Phylogenetics and the likelihood gradient with Xiang Ji

In this episode, we chat about phylogenetics with Xiang Ji . We start with a general introduction to the field and then go deeper into the likelihood-based methods (maximum likelihood and Bayesian inference). In particular, we talk about the different ways to calculate the likelihood gradient, including a linear-time exact gradient algorithm recently published by Xiang and his colleagues. Links: Gradients Do Grow on Trees: A Linear-Time O(N) -Dimensional Gradient for Statistical Phylogenetics (Xiang Ji, Zhenyu Zhang, Andrew Holbrook, Akihiko Nishimura, Guy Baele, Andrew Rambaut, Philippe Lemey, Marc A Suchard) BEAGLE : the package that implements the gradient algorithm BEAST : the program that implements the Hamiltonian Monte Carlo sampler and the molecular clock models

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#55 Phylogenetics and the likelihood gradient with Xiang Ji is an episode from the bioinformatics chat by Roman Cheplyaka.

This episode is 00:57:02 long.

This episode was published on Jan 13, 2021.

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