An expectation maximization (EM) algorithm is derived to estimate the parameters of a phylogenetic model, a probabilistic model of molecular evolution that considers the phylogeny, or evolutionary tree, by which a set of present-day organisms are related. The EM algorithm is then extended for use with a combined phylogenetic and hidden Markov model. An efficient method is also shown for computi...

We construct new algorithms from scratch, which use the fourth order cumulant of stochastic variables for the cost function. The multiplicative updating rule here constructed is natural from the homogeneous nature of the Lie group and has numerous merits for the rigorous treatment of the dynamics. As one consequence, the second order convergence is shown. For the cost function, functions invari...

We present an estimate approach to compute the viscoplastic behavior of a polymer matrix composite (PMC) under different thermomechanical environments. This investigation incorporates computational neural network as the tool for deter-mining the creep behavior of the composite. We propose a new second-order learning algorithm for training the multilayer networks. Training in the neural network ...

The EM algorithm is one of the most commonly used methods of maximum likelihood estimation. In many practical applications, it converges at a frustratingly slow linear rate. The current paper considers an acceleration of the EM algorithm based on classical quasi-Newton optimization techniques. This acceleration seeks to steer the EM algorithm gradually toward the Newton-Raphson algorithm, which...

Generated Jacobian Equations have been introduced by Trudinger (Discrete Contin Dyn Syst A 34(4):1663–1681, 2014) as a generalization of Monge–Ampère equations arising in optimal transport. In this paper, we introduce and study damped Newton algorithm for solving these the semi-discrete setting, meaning that one two measures involved problem is finitely supported other absolutely continuous. We...