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Maximum Likelihood Phylogenetic Estimation from DNA Sequences with Variable Rates over Sites: Approximate Methods

by Ziheng Yang - J. Mol. Evol , 1994
"... Two approximate methods are proposed for maximum likelihood phylogenetic estimation, which allow variable rates of substitution across nucleotide sites. Three data sets with quite different characteristics were analyzed to examine empirically the performance of these methods. The first, called ..."
Abstract - Cited by 557 (29 self) - Add to MetaCart
the "discrete gamma model," uses several categories of rates to approximate the gamma distribution, with equal probability for each category. The mean of each category is used to represent all the rates falling in the category. The performance of this method is found to be quite good

Loopy belief propagation for approximate inference: An empirical study. In:

by Kevin P Murphy , Yair Weiss , Michael I Jordan - Proceedings of Uncertainty in AI, , 1999
"... Abstract Recently, researchers have demonstrated that "loopy belief propagation" -the use of Pearl's polytree algorithm in a Bayesian network with loops -can perform well in the context of error-correcting codes. The most dramatic instance of this is the near Shannon-limit performanc ..."
Abstract - Cited by 676 (15 self) - Add to MetaCart
in a more gen eral setting? We compare the marginals com puted using loopy propagation to the exact ones in four Bayesian network architectures, including two real-world networks: ALARM and QMR. We find that the loopy beliefs of ten converge and when they do, they give a good approximation

Policy gradient methods for reinforcement learning with function approximation.

by Richard S Sutton , David Mcallester , Satinder Singh , Yishay Mansour - In NIPS, , 1999
"... Abstract Function approximation is essential to reinforcement learning, but the standard approach of approximating a value function and determining a policy from it has so far proven theoretically intractable. In this paper we explore an alternative approach in which the policy is explicitly repres ..."
Abstract - Cited by 439 (20 self) - Add to MetaCart
represented by its own function approximator, independent of the value function, and is updated according to the gradient of expected reward with respect to the policy parameters. Williams's REINFORCE method and actor-critic methods are examples of this approach. Our main new result is to show

Volume of Fluid (VOF) Method for the Dynamics of Free Boundaries

by C. W. Hirt, B. D. Nichols , 1981
"... Several methods have been previously used to approximate free boundaries in finite difference numerical simulations. A simple, but powerful, method is described that is based on the concept of a fractional volume of fluid (VOF). This method is shown to be more flexible and efficient than other metho ..."
Abstract - Cited by 603 (3 self) - Add to MetaCart
Several methods have been previously used to approximate free boundaries in finite difference numerical simulations. A simple, but powerful, method is described that is based on the concept of a fractional volume of fluid (VOF). This method is shown to be more flexible and efficient than other

Approximate Riemann Solvers, Parameter Vectors, and Difference Schemes

by P. L. Roe - J. COMP. PHYS , 1981
"... Several numerical schemes for the solution of hyperbolic conservation laws are based on exploiting the information obtained by considering a sequence of Riemann problems. It is argued that in existing schemes much of this information is degraded, and that only certain features of the exact solution ..."
Abstract - Cited by 1010 (2 self) - Add to MetaCart
Several numerical schemes for the solution of hyperbolic conservation laws are based on exploiting the information obtained by considering a sequence of Riemann problems. It is argued that in existing schemes much of this information is degraded, and that only certain features of the exact solution

Approximating discrete probability distributions with dependence trees

by C. K. Chow, C. N. Liu - IEEE TRANSACTIONS ON INFORMATION THEORY , 1968
"... A method is presented to approximate optimally an n-dimensional discrete probability distribution by a product of second-order distributions, or the distribution of the first-order tree dependence. The problem is to find an optimum set of n-1 first order dependence relationship among the n variables ..."
Abstract - Cited by 881 (0 self) - Add to MetaCart
A method is presented to approximate optimally an n-dimensional discrete probability distribution by a product of second-order distributions, or the distribution of the first-order tree dependence. The problem is to find an optimum set of n-1 first order dependence relationship among the n

Greedy Function Approximation: A Gradient Boosting Machine

by Jerome H. Friedman - Annals of Statistics , 2000
"... Function approximation is viewed from the perspective of numerical optimization in function space, rather than parameter space. A connection is made between stagewise additive expansions and steepest{descent minimization. A general gradient{descent \boosting" paradigm is developed for additi ..."
Abstract - Cited by 1000 (13 self) - Add to MetaCart
Function approximation is viewed from the perspective of numerical optimization in function space, rather than parameter space. A connection is made between stagewise additive expansions and steepest{descent minimization. A general gradient{descent \boosting" paradigm is developed

Constructing Free Energy Approximations and Generalized Belief Propagation Algorithms

by Jonathan S. Yedidia, William T. Freeman, Yair Weiss - IEEE Transactions on Information Theory , 2005
"... Important inference problems in statistical physics, computer vision, error-correcting coding theory, and artificial intelligence can all be reformulated as the computation of marginal probabilities on factor graphs. The belief propagation (BP) algorithm is an efficient way to solve these problems t ..."
Abstract - Cited by 585 (13 self) - Add to MetaCart
the Bethe approximation, and corresponding generalized belief propagation (GBP) algorithms. We emphasize the conditions a free energy approximation must satisfy in order to be a “valid ” or “maxent-normal ” approximation. We describe the relationship between four different methods that can be used

Integrated architectures for learning, planning, and reacting based on approximating dynamic programming

by Richard S. Sutton - Proceedings of the SevenLh International Conference on Machine Learning , 1990
"... gutton~gte.com Dyna is an AI architecture that integrates learning, planning, and reactive execution. Learning methods are used in Dyna both for compiling planning results and for updating a model of the effects of the agent's actions on the world. Planning is incremental and can use the probab ..."
Abstract - Cited by 563 (22 self) - Add to MetaCart
gutton~gte.com Dyna is an AI architecture that integrates learning, planning, and reactive execution. Learning methods are used in Dyna both for compiling planning results and for updating a model of the effects of the agent's actions on the world. Planning is incremental and can use

Approximate Statistical Tests for Comparing Supervised Classification Learning Algorithms

by Thomas G. Dietterich , 1998
"... This article reviews five approximate statistical tests for determining whether one learning algorithm outperforms another on a particular learning task. These tests are compared experimentally to determine their probability of incorrectly detecting a difference when no difference exists (type I err ..."
Abstract - Cited by 723 (8 self) - Add to MetaCart
This article reviews five approximate statistical tests for determining whether one learning algorithm outperforms another on a particular learning task. These tests are compared experimentally to determine their probability of incorrectly detecting a difference when no difference exists (type I
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