Results 1 to 10 of about 243 (115)
Tree diet: reducing the treewidth to unlock FPT algorithms in RNA bioinformatics [PDF]
Algorithms for Molecular Biology, 2022 Hard graph problems are ubiquitous in Bioinformatics, inspiring the design of specialized Fixed-Parameter Tractable algorithms, many of which rely on a combination of tree-decomposition and dynamic programming.
Bertrand Marchand +2 more
doaj +2 more sources
Maximum-scoring path sets on pangenome graphs of constant treewidth [PDF]
Frontiers in BioinformaticsWe generalize a problem of finding maximum-scoring segment sets, previously studied by Csűrös (IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2004, 1, 139–150), from sequences to graphs.
Broňa Brejová +3 more
doaj +2 more sources
Treewidth-based algorithms for the small parsimony problem on networks [PDF]
Algorithms for Molecular Biology, 2022 Background Phylogenetic reconstruction is one of the paramount challenges of contemporary bioinformatics. A subtask of existing tree reconstruction algorithms is modeled by the Small Parsimony problem: given a tree T and an assignment of character-states
Celine Scornavacca, Mathias Weller
doaj +2 more sources
Benchmarking treewidth as a practical component of tensor network simulations. [PDF]
PLoS ONE, 2018 Tensor networks are powerful factorization techniques which reduce resource requirements for numerically simulating principal quantum many-body systems and algorithms.
Eugene F Dumitrescu +5 more
doaj +2 more sources
Separating layered treewidth and row treewidth [PDF]
Discrete Mathematics & Theoretical Computer Science, 2022 Layered treewidth and row treewidth are recently introduced graph parameters that have been key ingredients in the solution of several well-known open problems.
Prosenjit Bose +4 more
doaj +1 more source
A note on domino treewidth [PDF]
Discrete Mathematics & Theoretical Computer Science, 1999 In [DO95], Ding and Oporowski proved that for every k, and d, there exists a constant c_k,d, such that every graph with treewidth at most k and maximum degree at most d has domino treewidth at most c_k,d.
Hans L. Bodlaender
doaj +3 more sources
The treewidth of 2-section of hypergraphs [PDF]
Discrete Mathematics & Theoretical Computer Science, 2021 Let $H=(V,F)$ be a simple hypergraph without loops. $H$ is called linear if $|f\cap g|\le 1$ for any $f,g\in F$ with $f\not=g$. The $2$-section of $H$, denoted by $[H]_2$, is a graph with $V([H]_2)=V$ and for any $ u,v\in V([H]_2)$, $uv\in E([H]_2)$ if ...
Ke Liu, Mei Lu
doaj +1 more source
Improved product structure for graphs on surfaces [PDF]
Discrete Mathematics & Theoretical Computer Science, 2022 Dujmovi\'c, Joret, Micek, Morin, Ueckerdt and Wood [J. ACM 2020] proved that for every graph $G$ with Euler genus $g$ there is a graph $H$ with treewidth at most 4 and a path $P$ such that $G\subseteq H \boxtimes P \boxtimes K_{\max\{2g,3\}}$. We improve
Marc Distel +3 more
doaj +1 more source
Constant Congestion Brambles [PDF]
Discrete Mathematics & Theoretical Computer Science, 2022 A bramble in an undirected graph $G$ is a family of connected subgraphs of $G$ such that for every two subgraphs $H_1$ and $H_2$ in the bramble either $V(H_1) \cap V(H_2) \neq \emptyset$ or there is an edge of $G$ with one endpoint in $V(H_1)$ and the ...
Meike Hatzel +3 more
doaj +1 more source
Constrained Connectivity in Bounded X-Width Multi-Interface Networks
Algorithms, 2020 As technology advances and the spreading of wireless devices grows, the establishment of interconnection networks is becoming crucial. Main activities that involve most of the people concern retrieving and sharing information from everywhere.
Alessandro Aloisio, Alfredo Navarra
doaj +1 more source