Related papers: Minimum length RNA folding trajectories
The minimum distance of a code is an important concept in information theory. Hence, computing the minimum distance of a code with a minimum computational cost is a crucial process to many problems in this area. In this paper, we present…
Given a simple weighted directed graph $G = (V, E, \omega)$ on $n$ vertices as well as two designated terminals $s, t\in V$, our goal is to compute the shortest path from $s$ to $t$ avoiding any pair of presumably failed edges $f_1, f_2\in…
We investigate problems addressing combined connectivity augmentation and orientations settings. We give a polynomial-time 6-approximation algorithm for finding a minimum cost subgraph of an undirected graph $G$ that admits an orientation…
The Kirchhoff index, which is the sum of the resistance distance between every pair of nodes in a network, is a key metric for gauging network performance, where lower values signify enhanced performance. In this paper, we study the problem…
Minimum flow decomposition (MFD) (the problem of finding a minimum set of paths that perfectly decomposes a flow) is a classical problem in Computer Science, and variants of it are powerful models in multiassembly problems in Bioinformatics…
We give an $\tilde O(n^2)$ time algorithm for computing the exact Dynamic Time Warping distance between two strings whose run-length encoding is of size at most $n$. This matches (up to log factors) the known (conditional) lower bound, and…
All traditional methods of computing shortest paths depend upon edge-relaxation where the cost of reaching a vertex from a source vertex is possibly decreased if that edge is used. We introduce a method which maintains lower bounds as well…
We consider optimal distributed computation of a given function of distributed data. The input (data) nodes and the sink node that receives the function form a connected network that is described by an undirected weighted network graph. The…
Fault tolerance is a prerequisite for scalable quantum computing. Architectures based on 2D topological codes are effective for near-term implementations of fault tolerance. To obtain high performance with these architectures, we require a…
This paper considers downlink of reconfigurable intelligent surface (RIS) assisted cooperative non-orthogonal multiple access (CNOMA) systems. Our objective is to minimize the total transmit power by jointly optimizing the active…
We present time-space trade-offs for computing the Euclidean minimum spanning tree of a set $S$ of $n$ point-sites in the plane. More precisely, we assume that $S$ resides in a random-access memory that can only be read. The edges of the…
We introduce interlaced R2D2 (iR2D2), a DNN series paradigm for scalable image reconstruction from accelerated non-Cartesian k-space acquisitions in MRI with sensitivity map self-calibration. While unrolled DNN architectures provide robust…
Given an undirected graph $G=(V,E)$ with positive edge lengths and two vertices $s$ and $t$, the next-to-shortest path problem is to find an $st$-path which length is minimum amongst all $st$-paths strictly longer than the shortest path…
We present a method for solving the transshipment problem - also known as uncapacitated minimum cost flow - up to a multiplicative error of $1 + \varepsilon$ in undirected graphs with non-negative edge weights using a tailored gradient…
We present an interior point method for the min-cost flow problem that uses arc contractions and deletions to steer clear from the boundary of the polytope when path-following methods come too close. We obtain a randomized algorithm running…
Given a weighted, undirected graph $G$ cellularly embedded on a topological surface $S$, we describe algorithms to compute the second shortest and third shortest closed walks of $G$ that are neither homotopically trivial in $S$ nor…
When using graph transformation rules to implement graph algorithms, a challenge is to match the efficiency of programs in conventional languages. To help overcome that challenge, the graph programming language GP 2 features rooted rules…
RNA design aims to find a sequence that folds with highest probability into a designated target structure. However, certain structures are undesignable, meaning no sequence can fold into the target structure under the default (Turner) RNA…
We describe algorithms to efficiently compute minimum $(s,t)$-cuts and global minimum cuts of undirected surface-embedded graphs. Given an edge-weighted undirected graph $G$ with $n$ vertices embedded on an orientable surface of genus $g$,…
We consider single-source shortest path algorithms that perform a sequence of relaxation steps whose ordering depends only on the input graph structure and not on its weights or the results of prior steps. Each step examines one edge of the…