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In the past several years, the problem of genome assembly has received considerable attention from both biologists and computer scientists. An important component of current assembly methods is the scaffolding process. This process involves…
We solve Poisson's equation using new multigrid algorithms that converge rapidly. The novel feature of the 2D and 3D algorithms are the use of extra diagonal grids in the multigrid hierarchy for a much richer and effective communication…
Let G be a finite group. Define a relation ~ on the conjugacy classes of G by setting C ~ D if there are representatives c \in C and d \in D such that cd = dc. In the case where G has a normal subgroup H such that G/H is cyclic, two…
This manuscript represents the author's PhD dissertation thesis.The first part studies decision problems in Thompson's groups F,T,V and some generalizations. The simultaneous conjugacy problem is determined to be solvable for Thompson's…
We describe an implementation of a genetic algorithm on partially commutative groups and apply it to the double coset search problem on a subclass of groups. This transforms a combinatorial group theory problem to a problem of combinatorial…
We give a unified solution to the conjugacy problem for Thompson's groups F, T, and V. The solution uses strand diagrams, which are similar in spirit to braids and generalize tree-pair diagrams for elements of Thompson's groups. Strand…
We give a precise definition of ``generic-case complexity'' and show that for a very large class of finitely generated groups the classical decision problems of group theory - the word, conjugacy and membership problems - all have…
We would like to congratulate the authors of "A Bayesian Conjugate Gradient Method" on their insightful paper, and welcome this publication which we firmly believe will become a fundamental contribution to the growing field of probabilistic…
We consider coordinate descent methods on convex quadratic problems, in which exact line searches are performed at each iteration. (This algorithm is identical to Gauss-Seidel on the equivalent symmetric positive definite linear system.) We…
In this paper, we have examined the problem of embedding a cycle of n vertices onto a given set of n points inside a simple polygon. The goal of the problem is that the cycle must be embedded without bends and does not intersect itself and…
A principled approach to cyclicality and intransitivity in paired comparison data is developed. The proposed methodology enables more precise estimation of the underlying preference profile and facilitates the identification of all cyclic…
An algorithm is constructed that, when given an explicit presentation of a finitely generated nilpotent group $G,$ decides for any pair of endomorphisms $\varphi, \psi : G \to G$ and any pair of elements $u, v \in G,$ whether or not the…
This paper proposes a generalization of the conjugate gradient (CG) method used to solve the equation $Ax=b$ for a symmetric positive definite matrix $A$ of large size $n$. The generalization consists of permitting the scalar control…
Motivated by the study of the conjugacy problem for outer automorphism of free groups, we develop the algorithmic theory of the free-by-cyclic group produced by unipotent linearly growing automorphisms of f.g. free groups. We compute…
In this work, we present and analyze C-SAGA, a (deterministic) cyclic variant of SAGA. C-SAGA is an incremental gradient method that minimizes a sum of differentiable convex functions by cyclically accessing their gradients. Even though the…
We consider tiling dynamical systems and topological conjugacies between them. We prove that the criterion of being finite type is invariant under topological conjugacy. For substitution tiling systems under rather general conditions,…
The problem of clustering is considered, for the case when each data point is a sample generated by a stationary ergodic process. We propose a very natural asymptotic notion of consistency, and show that simple consistent algorithms exist,…
The problem of clustering is considered, for the case when each data point is a sample generated by a stationary ergodic process. We propose a very natural asymptotic notion of consistency, and show that simple consistent algorithms exist,…
We establish a connection between the generalized conjugacy problem for a $G$-by-$\mathbb{Z}$ group, $GCP(G \rtimes \mathbb{Z})$, and two algorithmic problems for $G$: the generalized Brinkmann's conjugacy problem, $GBrCP(G)$, and the…
Due to a lack of coherent analysis, many common practices of humankind preserve low-efficient procedures. Balancing tubes during centrifugation exemplifies such a problem in laboratory practice. Using combination of symmetry group theory…