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Aligning sequencing reads on graph representations of genomes is an important ingredient of pan-genomics. Such approaches typically find a set of local anchors that indicate plausible matches between substrings of a read to subpaths of the…
We study the vertex-decremental Single-Source Shortest Paths (SSSP) problem: given an undirected graph $G=(V,E)$ with lengths $\ell(e)\geq 1$ on its edges and a source vertex $s$, we need to support (approximate) shortest-path queries in…
Let $G$ be an $n$-node simple directed planar graph with nonnegative edge weights. We study the fundamental problems of computing (1) a global cut of $G$ with minimum weight and (2) a~cycle of $G$ with minimum weight. The best previously…
We present an $m^{4/3+o(1)}\log W$-time algorithm for solving the minimum cost flow problem in graphs with unit capacity, where $W$ is the maximum absolute value of any edge weight. For sparse graphs, this improves over the best known…
We consider a classic search problem first proposed by S. Gal in which a Searcher randomizes between unit speed paths on a network, aiming to find a hidden point in minimal expected time in the worst case. This can be viewed as a zero-sum…
We present a simplified algorithm for solving the Negative-Weight Single-Source Shortest Paths (SSSP) problem, focusing on enhancing clarity and practicality over prior methods. Our algorithm uses graph diameter as a recursive parameter,…
Reconstructing the evolutionary history of a set of species is a central task in computational biology. In real data, it is often the case that some information is missing: the Incomplete Directed Perfect Phylogeny (IDPP) problem asks,…
The Shortest-Path Problem in Graph of Convex Sets (SPP in GCS) is a recently developed optimization framework that blends discrete and continuous decision making. Many relevant problems in robotics, such as collision-free motion planning,…
The $k$-vertex disjoint paths problem is one of the most studied problems in algorithmic graph theory. In 1994, Schrijver proved that the problem can be solved in polynomial time for every fixed $k$ when restricted to the class of planar…
We study the problem of finding the cycle of minimum cost-to-time ratio in a directed graph with $ n $ nodes and $ m $ edges. This problem has a long history in combinatorial optimization and has recently seen interesting applications in…
We study a large family of graph covering problems, whose definitions rely on distances, for graphs of bounded cyclomatic number (that is, the minimum number of edges that need to be removed from the graph to destroy all cycles). These…
We present a randomized algorithm for the single-source shortest paths (SSSP) problem on directed graphs with arbitrary real-valued edge weights that runs in $n^{2+o(1)}$ time with high probability. This result yields the first almost…
The distributed single-source shortest paths problem is one of the most fundamental and central problems in the message-passing distributed computing. Classical Bellman-Ford algorithm solves it in $O(n)$ time, where $n$ is the number of…
The problem of finding, in an edge-weighted bidirected graph $G=(V,E)$, a cycle with minimum mean weight of its edges generalizes similar problems for both directed and undirected graphs. (The problem is considered in two variants: for the…
Performing random walks in networks is a fundamental primitive that has found applications in many areas of computer science, including distributed computing. In this paper, we focus on the problem of sampling random walks efficiently in a…
Node connectivity plays a central role in temporal network analysis. We provide a comprehensive study of various concepts of walks in temporal graphs, that is, graphs with fixed vertex sets but edge sets changing over time. Taking into…
Minimum flow decomposition (MFD) -- the problem of finding a minimum set of weighted source-to-sink paths that perfectly decomposes a flow -- is a classical problem in Computer Science, and variants of it are powerful models in different…
Many common graph data mining tasks take the form of identifying dense subgraphs (e.g. clustering, clique-finding, etc). In biological applications, the natural model for these dense substructures is often a complete bipartite graph…
In most of the shortest path problems like vehicle routing problems and network routing problems, we only need an efficient path between two points source and destination, and it is not necessary to calculate the shortest path from source…
We introduce and formulate two types of random-walk domination problems in graphs motivated by a number of applications in practice (e.g., item-placement problem in online social network, Ads-placement problem in advertisement networks, and…