Related papers: Transfer matrix algorithm for computing the exact …
Computing the Fr\'{e}chet distance for surfaces is a surprisingly hard problem and the only known algorithm is limited to computing it between flat surfaces. We adapt this algorithm to create one for computing the Fr\'{e}chet distance for a…
The effect of different move sets on the folding kinetics of the Monte Carlo simulations is analysed based on the conformation-network and the temperature-dependent folding kinetics. A new scheme of implementing Metropolis algorithm is…
The pivot algorithm is the most efficient known method for sampling polymer configurations for self-avoiding walks and related models. Here we introduce two recent improvements to an efficient binary tree implementation of the pivot…
We show that the structure of the quantum group $su_{q}(2)$ is intimately related to the random walks on a two dimentional lattice. Using this connection we obtain an appropriate candidate for the exact area distribution of closed random…
We present an optimized single-precision implementation of the Sparse Approximate Matrix Multiply (\SpAMM{}) [M. Challacombe and N. Bock, arXiv {\bf 1011.3534} (2010)], a fast algorithm for matrix-matrix multiplication for matrices with…
To analyze nonlinear dynamic systems, we developed a new technique based on the square matrix method. We propose this technique called the \convergence map" for generating particle stability diagrams similar to the frequency maps widely…
We establish the average-case hardness of the algorithmic problem of exact computation of the partition function associated with the Sherrington-Kirkpatrick model of spin glasses with Gaussian couplings and random external field. In…
Enumerating polygons on regular lattices is a classic problem in rigorous statistical mechanics. The goal of enumerating polygons on the square lattice via fermionic path integration was achieved using a free-fermion quadratic action in the…
In this paper, we consider a continuous-time quantum walk based search algorithm. We introduce equitable partition of the graph and perfect state transfer on it. By these two methods, we can calculate the success probability and the finding…
We describe a dynamic programming algorithm for exact counting and exact uniform sampling of matrices with specified row and column sums. The algorithm runs in polynomial time when the column sums are bounded. Binary or non-negative integer…
We find and analyse the exact solution of a model of three different polymers with asymmetric contact interactions in two dimensions, modelling a scenario where there are different types of polymers involved. In particular, we find the…
We present an $(1+\varepsilon)$-approximation algorithm with quasi-polynomial running time for computing the maximum weight independent set of polygons out of a given set of polygons in the plane (specifically, the running time is $n^{O(…
Fast exact algorithms are known for Hamiltonian paths in undirected and directed bipartite graphs through elegant though involved algorithms that are quite different from each other. We devise algorithms that are simple and similar to each…
In this work, Transition Probability Matrix (TPM) is proposed as a new method for extracting the features of nodes in the graph. The proposed method uses random walks to capture the connectivity structure of a node's close neighborhood. The…
Computation of the large sparse matrix exponential has been an important topic in many fields, such as network and finite-element analysis. The existing scaling and squaring algorithm (SSA) is not suitable for the computation of the large…
We present a method for calculating transfer matrices for the $q$-state Potts model partition functions $Z(G,q,v)$, for arbitrary $q$ and temperature variable $v$, on cyclic and M\"obius strip graphs $G$ of the square (sq), triangular…
Structural network embedding is a crucial step in enabling effective downstream tasks for complex systems that aims to project a network into a lower-dimensional space while preserving similarities among nodes. We introduce a simple and…
We study multivariate numerical integration of smooth functions in weighted Sobolev spaces with dominating mixed smoothness $\alpha\geq 2$ defined over the $s$-dimensional unit cube. We propose a new quasi-Monte Carlo (QMC)-based quadrature…
Minimal annihilating polynomials are very useful in a wide variety of algorithms in exact linear algebra. A new efficient method is proposed for calculating the minimal annihilating polynomials for all the unit vectors, for a square matrix…
We present a Monte Carlo algorithm that provides efficient and unbiased sampling of polymer melts consisting of two chains of equal length that jointly visit all the sites of a cubic lattice with rod geometry L x L x rL and non-periodic…