20,276 research outputs found
An improved generalized inverse algorithm for linear inequalities and its applications
Iterative, two-class algorithm for linear inequalitie
An improved multi-parametric programming algorithm for flux balance analysis of metabolic networks
Flux balance analysis has proven an effective tool for analyzing metabolic
networks. In flux balance analysis, reaction rates and optimal pathways are
ascertained by solving a linear program, in which the growth rate is maximized
subject to mass-balance constraints. A variety of cell functions in response to
environmental stimuli can be quantified using flux balance analysis by
parameterizing the linear program with respect to extracellular conditions.
However, for most large, genome-scale metabolic networks of practical interest,
the resulting parametric problem has multiple and highly degenerate optimal
solutions, which are computationally challenging to handle. An improved
multi-parametric programming algorithm based on active-set methods is
introduced in this paper to overcome these computational difficulties.
Degeneracy and multiplicity are handled, respectively, by introducing
generalized inverses and auxiliary objective functions into the formulation of
the optimality conditions. These improvements are especially effective for
metabolic networks because their stoichiometry matrices are generally sparse;
thus, fast and efficient algorithms from sparse linear algebra can be leveraged
to compute generalized inverses and null-space bases. We illustrate the
application of our algorithm to flux balance analysis of metabolic networks by
studying a reduced metabolic model of Corynebacterium glutamicum and a
genome-scale model of Escherichia coli. We then demonstrate how the critical
regions resulting from these studies can be associated with optimal metabolic
modes and discuss the physical relevance of optimal pathways arising from
various auxiliary objective functions. Achieving more than five-fold
improvement in computational speed over existing multi-parametric programming
tools, the proposed algorithm proves promising in handling genome-scale
metabolic models.Comment: Accepted in J. Optim. Theory Appl. First draft was submitted on
August 4th, 201
Super-resolution, Extremal Functions and the Condition Number of Vandermonde Matrices
Super-resolution is a fundamental task in imaging, where the goal is to
extract fine-grained structure from coarse-grained measurements. Here we are
interested in a popular mathematical abstraction of this problem that has been
widely studied in the statistics, signal processing and machine learning
communities. We exactly resolve the threshold at which noisy super-resolution
is possible. In particular, we establish a sharp phase transition for the
relationship between the cutoff frequency () and the separation ().
If , our estimator converges to the true values at an inverse
polynomial rate in terms of the magnitude of the noise. And when no estimator can distinguish between a particular pair of
-separated signals even if the magnitude of the noise is exponentially
small.
Our results involve making novel connections between {\em extremal functions}
and the spectral properties of Vandermonde matrices. We establish a sharp phase
transition for their condition number which in turn allows us to give the first
noise tolerance bounds for the matrix pencil method. Moreover we show that our
methods can be interpreted as giving preconditioners for Vandermonde matrices,
and we use this observation to design faster algorithms for super-resolution.
We believe that these ideas may have other applications in designing faster
algorithms for other basic tasks in signal processing.Comment: 19 page
First order algorithms in variational image processing
Variational methods in imaging are nowadays developing towards a quite
universal and flexible tool, allowing for highly successful approaches on tasks
like denoising, deblurring, inpainting, segmentation, super-resolution,
disparity, and optical flow estimation. The overall structure of such
approaches is of the form ; where the functional is a data fidelity term also
depending on some input data and measuring the deviation of from such
and is a regularization functional. Moreover is a (often linear)
forward operator modeling the dependence of data on an underlying image, and
is a positive regularization parameter. While is often
smooth and (strictly) convex, the current practice almost exclusively uses
nonsmooth regularization functionals. The majority of successful techniques is
using nonsmooth and convex functionals like the total variation and
generalizations thereof or -norms of coefficients arising from scalar
products with some frame system. The efficient solution of such variational
problems in imaging demands for appropriate algorithms. Taking into account the
specific structure as a sum of two very different terms to be minimized,
splitting algorithms are a quite canonical choice. Consequently this field has
revived the interest in techniques like operator splittings or augmented
Lagrangians. Here we shall provide an overview of methods currently developed
and recent results as well as some computational studies providing a comparison
of different methods and also illustrating their success in applications.Comment: 60 pages, 33 figure
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