Now showing items 1-10 of 209
Parallel Continuous Optimization
Parallel continuous optimization methods are motivated here by applications in science and engineering. The key issues are addressed at different computational levels including local and global optimization as well as ...
Rank-Two Relaxation Heuristics for Max-Cut and Other Binary Quadratic Programs
Semidefinite relaxation for certain discrete optimization problems involves replacing a vector-valued variable by a matrix-valued one, producing a convex program while increasing the number of variables by an order of ...
On Eliminating Square Paths in a Square Lattice
Removing the minimum number of vertices or points from a square lattice such that no square path exists is known as the square path problem. Finding this number as the size of the lattice increases is not so trivial. Results ...
Simultaneous Structure Factor and Contrast Transfer Function Parameter Determination in Transmission Electron Microscopy
We present a new method that allows a fully automated simultaneous determination of the structure factor and the parameters of the Contrast Transfer Function (CTF) and noise function. No previous knowledge of the structure ...
Designing and Analyzing Computational Experiments for Global Optimization
We consider a variety of issues that arise when designing and analyzing computational experiments for global optimization. We describe a probability model for objective functions and a method for generating pseudorandom ...
Mathematical Modeling of Protein Structure Using Distance Geometry
This paper reviews methods for structure determination with interatomic distances and explores possible improvement of the methods and ways of combining them with potential energy minimization.
Identification of Regional Variation in the Constitutive Response of Axisymmetric Membranes
We demonstrate that the equilibrium equations for an axisymmetric, nonlinear, anisotropic membrane under hydrostatic pressure allow explicit representation of the longitudinal and azimuthal stresses in terms of the associated ...
Correcting an Inconsistent System of Linear Inequalities by Nonlinear Programming
We consider the problem of correcting an inconsistent system of linear inequalities, Ax <= b, subject to nonnegativity constraints, x >= 0. We formulate this problem as a nonlinear program and derive the corresponding ...
A Fast, Fully Implicit Backward Euler Solver for Dendritic Neurons
We develop and test a C++ implementation of a discretization of the Hodgkin-Huxley equations for dendritic neurons which employs backward Euler in time and finite differences in space. We make use of the sparse analytical ...
Understanding code generated by TAMC
The Tangent linear and Adjoint Model Compiler (TAMC) is an automatic differentiation package designed and implemented by Ralf Giering. The code generated by TAMC can be understood in terms of a careful mathematical model ...