5 Search Results for "Bumpus, Benjamin Merlin"

Document
DOI: 10.4230/LIPIcs.ESA.2025.55
Safe Sequences via Dominators in DAGs for Path-Covering Problems

Authors: Francisco Sena, Romeo Rizzi, and Alexandru I. Tomescu

Published in: LIPIcs, Volume 351, 33rd Annual European Symposium on Algorithms (ESA 2025)

Abstract
A path-covering problem on a directed acyclic graph (DAG) requires finding a set of source-to-sink paths that cover all the nodes, all the arcs, or subsets thereof, and additionally they are optimal with respect to some function. In this paper we study safe sequences of nodes or arcs, namely sequences that appear in some path of every path cover of a DAG. We show that safe sequences admit a simple characterization via cutnodes. Moreover, we establish a connection between maximal safe sequences and leaf-to-root paths in the source- and sink-dominator trees of the DAG, which may be of independent interest in the extensive literature on dominators. With dominator trees, safe sequences admit an O(n)-size representation and a linear-time output-sensitive enumeration algorithm running in time O(m + o), where n and m are the number of nodes and arcs, respectively, and o is the total length of the maximal safe sequences. We then apply maximal safe sequences to simplify Integer Linear Programs (ILPs) for two path-covering problems, LeastSquares and MinPathError, which are at the core of RNA transcript assembly problems from bioinformatics. On various datasets, maximal safe sequences can be computed in under 0.1 seconds per graph, on average, and ILP solvers whose search space is reduced in this manner exhibit significant speed-ups. For example on graphs with a large width, average speed-ups are in the range 50-250× for MinPathError and in the range 80-350× for LeastSquares. Optimizing ILPs using safe sequences can thus become a fast building block of practical RNA transcript assembly tools, and more generally, of path-covering problems.
Cite as

Francisco Sena, Romeo Rizzi, and Alexandru I. Tomescu. Safe Sequences via Dominators in DAGs for Path-Covering Problems. In 33rd Annual European Symposium on Algorithms (ESA 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 351, pp. 55:1-55:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{sena_et_al:LIPIcs.ESA.2025.55,
  author =	{Sena, Francisco and Rizzi, Romeo and Tomescu, Alexandru I.},
  title =	{{Safe Sequences via Dominators in DAGs for Path-Covering Problems}},
  booktitle =	{33rd Annual European Symposium on Algorithms (ESA 2025)},
  pages =	{55:1--55:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-395-9},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{351},
  editor =	{Benoit, Anne and Kaplan, Haim and Wild, Sebastian and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2025.55},
  URN =		{urn:nbn:de:0030-drops-245230},
  doi =		{10.4230/LIPIcs.ESA.2025.55},
  annote =	{Keywords: directed acyclic graph, path cover, dominator tree, integer linear programming, least squares, minimum path error}
}
Document
DOI: 10.4230/LIPIcs.CONCUR.2025.7
Temporal Explorability Games

Authors: Pete Austin, Sougata Bose, Nicolas Mazzocchi, and Patrick Totzke

Published in: LIPIcs, Volume 348, 36th International Conference on Concurrency Theory (CONCUR 2025)

Abstract
Temporal graphs extend ordinary graphs with discrete time that affects the availability of edges. We consider solving games played on temporal graphs where one player aims to explore the graph, i.e., visit all vertices. The complexity depends majorly on two factors: the presence of an adversary and how edge availability is specified. We demonstrate that on static graphs, where edges are always available, solving explorability games is just as hard as solving reachability games. In contrast, on temporal graphs, the complexity of explorability coincides with generalized reachability (NP-complete for one-player and PSPACE-complete for two player games). We show that if temporal graphs are given symbolically, even one-player reachability (and thus explorability and generalized reachability) games are PSPACE-hard. For one player, all these are also solvable in PSPACE and for two players, they are in PSPACE, EXP and EXP, respectively.
Cite as

Pete Austin, Sougata Bose, Nicolas Mazzocchi, and Patrick Totzke. Temporal Explorability Games. In 36th International Conference on Concurrency Theory (CONCUR 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 348, pp. 7:1-7:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{austin_et_al:LIPIcs.CONCUR.2025.7,
  author =	{Austin, Pete and Bose, Sougata and Mazzocchi, Nicolas and Totzke, Patrick},
  title =	{{Temporal Explorability Games}},
  booktitle =	{36th International Conference on Concurrency Theory (CONCUR 2025)},
  pages =	{7:1--7:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-389-8},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{348},
  editor =	{Bouyer, Patricia and van de Pol, Jaco},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.CONCUR.2025.7},
  URN =		{urn:nbn:de:0030-drops-239575},
  doi =		{10.4230/LIPIcs.CONCUR.2025.7},
  annote =	{Keywords: Temporal Graphs, Explorability, Reachability, Games}
}
Document
DOI: 10.4230/LIPIcs.SAND.2025.7
Better Late, Then? The Hardness of Choosing Delays to Meet Passenger Demands in Temporal Graphs

Authors: David C. Kutner and Anouk Sommer

Published in: LIPIcs, Volume 330, 4th Symposium on Algorithmic Foundations of Dynamic Networks (SAND 2025)

Abstract
In train networks, carefully-chosen delays may be beneficial for certain passengers, who would otherwise miss some connection. Given a simple (directed or undirected) temporal graph and a set of passengers (each specifying a starting vertex, an ending vertex, and a desired arrival time), we ask whether it is possible to delay some of the edges of the temporal graph to realize all the passengers' demands. We call this problem DelayBetter (DB), and study it along with two variants: in δ-DelayBetter, each delay must be of at most δ; in (δ-)Path DB, passengers also fully specify the vertices they should visit on their journey. On the positive side, we give a polynomial-time algorithm for Path DB and δ-Path DB, and obtain as a corollary a polynomial-time algorithm for DB and δ-DB on trees. We also provide an fpt algorithm for both problems parameterized by the size of the graph’s Feedback Edge Set together with the number of passengers. On the negative side, we show NP-completeness of (1-)DB on bounded-degree temporal graphs even when the lifetime is 2, and of (10-)DB on bounded-degree planar temporal graphs of lifetime 19. Our results complement previous work studying reachability problems in temporal graphs with delaying operations. This is to our knowledge the first such problem in which the aim is to facilitate travel between specific points (as opposed to facilitating or impeding a broadcast from one or many sources).
Cite as

David C. Kutner and Anouk Sommer. Better Late, Then? The Hardness of Choosing Delays to Meet Passenger Demands in Temporal Graphs. In 4th Symposium on Algorithmic Foundations of Dynamic Networks (SAND 2025). Leibniz International Proceedings in Informatics (LIPIcs), Volume 330, pp. 7:1-7:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)

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@InProceedings{kutner_et_al:LIPIcs.SAND.2025.7,
  author =	{Kutner, David C. and Sommer, Anouk},
  title =	{{Better Late, Then? The Hardness of Choosing Delays to Meet Passenger Demands in Temporal Graphs}},
  booktitle =	{4th Symposium on Algorithmic Foundations of Dynamic Networks (SAND 2025)},
  pages =	{7:1--7:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-368-3},
  ISSN =	{1868-8969},
  year =	{2025},
  volume =	{330},
  editor =	{Meeks, Kitty and Scheideler, Christian},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SAND.2025.7},
  URN =		{urn:nbn:de:0030-drops-230604},
  doi =		{10.4230/LIPIcs.SAND.2025.7},
  annote =	{Keywords: Temporal Graphs, Computational Complexity, Delay Management, Train Networks}
}
Document
DOI: 10.4230/LIPIcs.SWAT.2024.19
Fixed-Parameter Tractable Certified Algorithms for Covering and Dominating in Planar Graphs and Beyond

Authors: Benjamin Merlin Bumpus, Bart M. P. Jansen, and Jaime Venne

Published in: LIPIcs, Volume 294, 19th Scandinavian Symposium and Workshops on Algorithm Theory (SWAT 2024)

Abstract
For a positive real γ ≥ 1, a γ-certified algorithm for a vertex-weighted graph optimization problem is an algorithm that, given a weighted graph (G,w), outputs a re-weighting of the graph obtained by scaling each weight individually with a factor between 1 and γ, along with a solution which is optimal for the perturbed weight function. Here we provide (1+ε)-certified algorithms for Dominating Set and H-Subgraph-Free-Deletion which, for any ε > 0, run in time f(1/ε)⋅n^𝒪(1) on minor-closed classes of graphs of bounded local tree-width with polynomially-bounded weights. We obtain our algorithms as corollaries of a more general result establishing FPT-time certified algorithms for problems admitting, at an intuitive level, certain "local solution-improvement properties". These results improve - in terms of generality, running time and parameter dependence - on Angelidakis, Awasthi, Blum, Chatziafratis and Dan’s XP-time (1+ε)-certified algorithm for Independent Set on planar graphs (ESA2019). Furthermore, our methods are also conceptually simpler: our algorithm is based on elementary local re-optimizations inspired by Baker’s technique, as opposed to the heavy machinery of the Sherali-Adams hierarchy required in previous work.
Cite as

Benjamin Merlin Bumpus, Bart M. P. Jansen, and Jaime Venne. Fixed-Parameter Tractable Certified Algorithms for Covering and Dominating in Planar Graphs and Beyond. In 19th Scandinavian Symposium and Workshops on Algorithm Theory (SWAT 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 294, pp. 19:1-19:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{bumpus_et_al:LIPIcs.SWAT.2024.19,
  author =	{Bumpus, Benjamin Merlin and Jansen, Bart M. P. and Venne, Jaime},
  title =	{{Fixed-Parameter Tractable Certified Algorithms for Covering and Dominating in Planar Graphs and Beyond}},
  booktitle =	{19th Scandinavian Symposium and Workshops on Algorithm Theory (SWAT 2024)},
  pages =	{19:1--19:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-318-8},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{294},
  editor =	{Bodlaender, Hans L.},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SWAT.2024.19},
  URN =		{urn:nbn:de:0030-drops-200595},
  doi =		{10.4230/LIPIcs.SWAT.2024.19},
  annote =	{Keywords: fixed-parameter tractability, certified algorithms}
}
Document
DOI: 10.4230/LIPIcs.ESA.2022.30
Search-Space Reduction via Essential Vertices

Authors: Benjamin Merlin Bumpus, Bart M. P. Jansen, and Jari J. H. de Kroon

Published in: LIPIcs, Volume 244, 30th Annual European Symposium on Algorithms (ESA 2022)

Abstract
We investigate preprocessing for vertex-subset problems on graphs. While the notion of kernelization, originating in parameterized complexity theory, is a formalization of provably effective preprocessing aimed at reducing the total instance size, our focus is on finding a non-empty vertex set that belongs to an optimal solution. This decreases the size of the remaining part of the solution which still has to be found, and therefore shrinks the search space of fixed-parameter tractable algorithms for parameterizations based on the solution size. We introduce the notion of a c-essential vertex as one that is contained in all c-approximate solutions. For several classic combinatorial problems such as Odd Cycle Transversal and Directed Feedback Vertex Set, we show that under mild conditions a polynomial-time preprocessing algorithm can find a subset of an optimal solution that contains all 2-essential vertices, by exploiting packing/covering duality. This leads to FPT algorithms to solve these problems where the exponential term in the running time depends only on the number of non-essential vertices in the solution.
Cite as

Benjamin Merlin Bumpus, Bart M. P. Jansen, and Jari J. H. de Kroon. Search-Space Reduction via Essential Vertices. In 30th Annual European Symposium on Algorithms (ESA 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 244, pp. 30:1-30:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)

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@InProceedings{bumpus_et_al:LIPIcs.ESA.2022.30,
  author =	{Bumpus, Benjamin Merlin and Jansen, Bart M. P. and de Kroon, Jari J. H.},
  title =	{{Search-Space Reduction via Essential Vertices}},
  booktitle =	{30th Annual European Symposium on Algorithms (ESA 2022)},
  pages =	{30:1--30:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-247-1},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{244},
  editor =	{Chechik, Shiri and Navarro, Gonzalo and Rotenberg, Eva and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2022.30},
  URN =		{urn:nbn:de:0030-drops-169687},
  doi =		{10.4230/LIPIcs.ESA.2022.30},
  annote =	{Keywords: fixed-parameter tractability, essential vertices, covering versus packing}
}
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