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DOI: 10.4230/LIPIcs.SEA.2026.5
BuffCut: Prioritized Buffered Streaming Graph Partitioning

Authors: Linus Baumgärtner, Adil Chhabra, Marcelo Fonseca Faraj, and Christian Schulz

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
Streaming graph partitioners enable resource-efficient and massively scalable partitioning, but one-pass assignment heuristics are highly sensitive to stream order and often yield substantially higher edge cuts than in-memory methods. We present BuffCut, a buffered streaming partitioner that narrows this quality gap, particularly when stream ordering is adversarial, by combining prioritized buffering with batch-wise multilevel assignment. BuffCut maintains a bounded priority buffer to delay poorly informed decisions and regulate the order in which nodes are considered for assignment. It incrementally constructs high-locality batches of configurable size by iteratively inserting the highest-priority nodes from the buffer into the batch, effectively recovering locality structure from the stream. Each batch is then assigned via a multilevel partitioning algorithm. Experiments on diverse real-world and synthetic graphs show that BuffCut consistently outperforms state-of-the-art buffered streaming methods. Compared to the strongest prioritized buffering baseline, BuffCut achieves 20.8% fewer edge cuts while running 2.9× faster and using 11.3× less memory. Against the next-best batched method, it reduces edge cut by 15.8% with only modest overheads of 1.8× runtime and 1.09× memory.
Cite as

Linus Baumgärtner, Adil Chhabra, Marcelo Fonseca Faraj, and Christian Schulz. BuffCut: Prioritized Buffered Streaming Graph Partitioning. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 5:1-5:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{baumgartner_et_al:LIPIcs.SEA.2026.5,
  author =	{Baumg\"{a}rtner, Linus and Chhabra, Adil and Faraj, Marcelo Fonseca and Schulz, Christian},
  title =	{{BuffCut: Prioritized Buffered Streaming Graph Partitioning}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{5:1--5:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.5},
  URN =		{urn:nbn:de:0030-drops-260097},
  doi =		{10.4230/LIPIcs.SEA.2026.5},
  annote =	{Keywords: graph partitioning, streaming, online, buffered, prioritized partitioning}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.2
Different Scales of Randomness: Empirical Mixing Times of the Edge Switching and Curveball MCMC

Authors: Deepak Ajwani, Melvin Kallmayer, Alexander Leonhardt, Ulrich Meyer, Ryan O'Connor, and Manuel Penschuck

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
The Fixed Degree Sequence Model (FDSM) asks for a uniform sample from the set of all simple graphs that match a prescribed degree sequence. It is typically implemented using Markov-Chain Monte-Carlo (MCMC) processes, such as Edge Switching or Curveball (and their variants). Yet despite decades of research, rigorous bounds on the mixing times of such processes remain impractical. Consequently, several experimental techniques have been used to derive "empirical lower bounds" on the mixing time. We address the following research questions: (1) Which commonly studied graph-theoretic properties serve as reliable empirical predictors for mixing of FDSM MCMC processes? (2) At what structural scales do these properties operate primarily (i. e., are they predominantly local or global in nature)? (3) How can these properties be characterised and quantified most effectively? To this end, we propose Claim, a novel systematic method to establish empirical lower bounds using learnt classifiers, and compare it to existing methods. Apart from interesting insights into the usage of machine learning for this problem, we also derive robust graph properties with respect to different randomisation algorithms. Although experimental in nature, these results may influence both theorist’s and algorithm engineer’s work on improved bounds and better algorithm respectively.
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Deepak Ajwani, Melvin Kallmayer, Alexander Leonhardt, Ulrich Meyer, Ryan O'Connor, and Manuel Penschuck. Different Scales of Randomness: Empirical Mixing Times of the Edge Switching and Curveball MCMC. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 2:1-2:19, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{ajwani_et_al:LIPIcs.SEA.2026.2,
  author =	{Ajwani, Deepak and Kallmayer, Melvin and Leonhardt, Alexander and Meyer, Ulrich and O'Connor, Ryan and Penschuck, Manuel},
  title =	{{Different Scales of Randomness: Empirical Mixing Times of the Edge Switching and Curveball MCMC}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{2:1--2:19},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.2},
  URN =		{urn:nbn:de:0030-drops-260062},
  doi =		{10.4230/LIPIcs.SEA.2026.2},
  annote =	{Keywords: Mixing Time, Graph Randomization, Machine Learning, Edge Switching}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.3
Approximation Algorithms for Budget Splitting in Multi-Channel Influence Maximization

Authors: Dildar Ali, Ansh Jasrotia, Abishek Salaria, and Suman Banerjee

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
How to utilize an allocated budget effectively for branding and promotion of a commercial house is an important problem, particularly when multiple advertising media are available. There exist multiple such media, and among them, two popular ones are billboards and social media advertisements. In this context, the question naturally arises: how should a budget be allocated to maximize total influence? Although there is significant literature on the effective use of budgets in individual advertising media, there are hardly any studies examining budget allocation across multiple advertising media. To bridge this gap, this paper introduces the Budget Splitting Problem in Billboard and Social Network Advertisement. We introduce the notion of interaction effect to capture the additional influence due to triggers from multiple media of advertising. Using this notion, we propose a noble influence function Φ(,) that captures the total influence and shows that this function is non-negative, monotone, and non-bisubmodular. We introduce bi-submodularity ratio (γ) and generalized curvature (α) to measure how close a function is to being bi-submodular and how far a function is from being modular, respectively. We propose the Randomized Greedy and Two-Phase Adaptive Greedy approach, where the influence function is non-bisubmodular and achieves an approximation guarantee of (1/α)(1-e^(-γα)). We conducted several experiments using real-world datasets and observed that the proposed solution approach’s budget splitting leads to a greater influence than existing approaches.
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Dildar Ali, Ansh Jasrotia, Abishek Salaria, and Suman Banerjee. Approximation Algorithms for Budget Splitting in Multi-Channel Influence Maximization. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 3:1-3:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{ali_et_al:LIPIcs.SEA.2026.3,
  author =	{Ali, Dildar and Jasrotia, Ansh and Salaria, Abishek and Banerjee, Suman},
  title =	{{Approximation Algorithms for Budget Splitting in Multi-Channel Influence Maximization}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{3:1--3:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.3},
  URN =		{urn:nbn:de:0030-drops-260070},
  doi =		{10.4230/LIPIcs.SEA.2026.3},
  annote =	{Keywords: Advertisement, Billboard, Social Network, Bi-submodularity, Influence Maximization}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.4
Integer Programming Models for the Median of a 0-1 String Set Under Levenshtein Distance

Authors: Claudio Arbib, Andrea D'Ascenzo, Oya E. Karaşan, and Andrea Pizzuti

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
The Median String Problem calls for finding a string that minimizes the average distance from a given set of strings. Under the Levenshtein (or edit) metric, the problem is NP-hard even for binary strings. We devised two novel integer linear programming models for this case and tested them against the only formulation we are aware of in the literature. Our numerical experiments attest to the efficacy of the proposed approach.
Cite as

Claudio Arbib, Andrea D'Ascenzo, Oya E. Karaşan, and Andrea Pizzuti. Integer Programming Models for the Median of a 0-1 String Set Under Levenshtein Distance. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 4:1-4:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{arbib_et_al:LIPIcs.SEA.2026.4,
  author =	{Arbib, Claudio and D'Ascenzo, Andrea and Kara\c{s}an, Oya E. and Pizzuti, Andrea},
  title =	{{Integer Programming Models for the Median of a 0-1 String Set Under Levenshtein Distance}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{4:1--4:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.4},
  URN =		{urn:nbn:de:0030-drops-260081},
  doi =		{10.4230/LIPIcs.SEA.2026.4},
  annote =	{Keywords: Levenshtein Distance, Median String Problem, Integer Programming}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.6
A Practical Algorithm for (Geometry-Aware) Interleavings Between Merge Trees

Authors: Thijs Beurskens, Emil Toftegaard Gæde, Tim Ophelders, Willem Sonke, Bettina Speckmann, and Kevin Verbeek

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
Merge trees are a popular topological descriptor for scalar field data. A common measure to compare two merge trees is the interleaving distance, which relies on a mapping between the two merge trees, also referred to as an interleaving. Despite its desirable properties, the interleaving distance has not been used much in practice, largely due to the fact that computing the exact interleaving distance is NP-hard. In this paper, we show that the exact interleaving distance can be computed efficiently for merge trees encountered in practice: we present the first implementation of the exact fixed-parameter tractable (FPT) algorithm by Touli and Wang [Touli and Wang, 2022]. This algorithm uses a dynamic program to test if a specific interleaving distance δ is feasible. They bound the running time using a parameter τ that captures the number of mapping options between the two merge trees for the output distance δ. Our experiments show that, even though τ can become quite large for real-world merge trees, the running time of our implementation does not depend very heavily on τ. Furthermore, we modify the FPT algorithm into a sweepline algorithm that runs much faster in practice. Finally, we introduce a natural restriction for the interleaving distance capturing the geometric similarity between the underlying scalar fields. This restricted interleaving distance can be computed more efficiently and can, in some settings, also result in more meaningful interleavings. We extend our implementations to support these restrictions and demonstrate their effect on the running time of the algorithms.
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Thijs Beurskens, Emil Toftegaard Gæde, Tim Ophelders, Willem Sonke, Bettina Speckmann, and Kevin Verbeek. A Practical Algorithm for (Geometry-Aware) Interleavings Between Merge Trees. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 6:1-6:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{beurskens_et_al:LIPIcs.SEA.2026.6,
  author =	{Beurskens, Thijs and G{\ae}de, Emil Toftegaard and Ophelders, Tim and Sonke, Willem and Speckmann, Bettina and Verbeek, Kevin},
  title =	{{A Practical Algorithm for (Geometry-Aware) Interleavings Between Merge Trees}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{6:1--6:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.6},
  URN =		{urn:nbn:de:0030-drops-260100},
  doi =		{10.4230/LIPIcs.SEA.2026.6},
  annote =	{Keywords: interleaving distance, geometry-aware, exact algorithm, implementation}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.1
Global Polyline Simplification Under the Fréchet Distance: Theory and Practice

Authors: Christian Abdullahad and Sabine Storandt

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
Given an input polyline with n vertices, the global polyline simplification problem seeks a simplified polyline with the minimum number of vertices whose distance to the original polyline does not exceed a given bound. For the vertex-restricted variant, where the simplified polyline is required to be a subsequence of the input vertices, an algorithm with a running time of 𝒪(n³) was presented in previous work, using the Fréchet distance as the polyline similarity measure. A closely related variant is the local polyline simplification problem, in which the distance bound is required to hold for every individual shortcut segment replacing a sub-polyline. This condition implies that any locally valid simplification is also globally valid, whereas the converse does not hold. As a consequence, globally optimal simplifications may use substantially fewer vertices than locally optimal ones. Indeed, in previous work, instances were constructed in which the optimal global simplification is smaller by a constant factor. On the algorithmic side, optimal local simplifications can be computed significantly faster, namely in 𝒪(n² log n) under the Fréchet distance, and efficient heuristics are also available. This raises the question of which problem variant is more suitable for practical application. In this paper, we first show that there exist instances for which the optimal solution sizes of global and local polyline simplification differ by a factor in Θ(n), substantially strengthening the previously known constant-factor separation. We then present the first practical implementations of existing algorithms for global polyline simplification and experimentally evaluate their performance. To this end, we introduce several engineering techniques that considerably accelerate these algorithms. Moreover, we develop an implicit Fréchet framework that allows many Fréchet-related problems to be addressed in a weaker computational model. Within this framework, explicit geometric computations can be reduced to simple comparisons, resulting in significantly more robust implementations. Somewhat surprisingly, our experimental results reveal that, despite the large worst-case gap established by our theoretical result, the difference in solution size between optimal global and local simplifications is negligible in practice. Motivated by this observation, we propose a heuristic for global polyline simplification that is guaranteed to produce solutions of size equal to or smaller than the optimal local simplification. On a benchmark consisting of one million polylines, the heuristic yields suboptimal results on only eight while being significantly faster than the optimal algorithms.
Cite as

Christian Abdullahad and Sabine Storandt. Global Polyline Simplification Under the Fréchet Distance: Theory and Practice. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 1:1-1:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{abdullahad_et_al:LIPIcs.SEA.2026.1,
  author =	{Abdullahad, Christian and Storandt, Sabine},
  title =	{{Global Polyline Simplification Under the Fr\'{e}chet Distance: Theory and Practice}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{1:1--1:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.1},
  URN =		{urn:nbn:de:0030-drops-260055},
  doi =		{10.4230/LIPIcs.SEA.2026.1},
  annote =	{Keywords: Polyline Simplification, Shortcut Graph, Fr\'{e}chet Distance}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.8
General Multiplicative Spanners in Practice

Authors: Fritz Bökler, Markus Chimani, and Henning Jasper

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
Given an undirected graph G with edge weights and lengths, a minimum α-spanner is a least-weight subgraph H ⊆ G that preserves distances w.r.t. the lengths between all node pairs up to a factor of α. Literature often takes the simplifying assumption of a single (coupled) edge function for weights and lengths. For such instances, several exact and non-exact algorithms are known and have been thoroughly evaluated in practice. However, many practical instances have decoupled form, as their weights and lengths are generally independent. Due to the increased complexity, only few (and even fewer practical) algorithms are able to guarantee low-weight solutions. This prompts practitioners to force their naturally decoupled instances into a coupled format, forsaking any quality guarantee. We implement several exact, approximative and heuristic algorithms for decoupled α-spanners, and use algorithm engineering to speed them up in practice. Our hypothesis-driven experiments evaluate their performance w.r.t. solution quality and speed. Generally, many practical instances can indeed be solved exactly within reasonable time, while LP-based approximation algorithms are not worthwhile. We find that standard greedy algorithms often yield acceptable results, but there are also practical instances for which they yield arbitrarily poor solutions. Here, augmented greedy variations offer a good compromise between solution quality and speed.
Cite as

Fritz Bökler, Markus Chimani, and Henning Jasper. General Multiplicative Spanners in Practice. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 8:1-8:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{bokler_et_al:LIPIcs.SEA.2026.8,
  author =	{B\"{o}kler, Fritz and Chimani, Markus and Jasper, Henning},
  title =	{{General Multiplicative Spanners in Practice}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{8:1--8:21},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.8},
  URN =		{urn:nbn:de:0030-drops-260120},
  doi =		{10.4230/LIPIcs.SEA.2026.8},
  annote =	{Keywords: Graph spanners, ILP, experimental study, algorithm engineering}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.13
Practical Parallel Block Tree Construction

Authors: Robert Clausecker, Florian Kurpicz, and Etienne Palanga

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
The block tree [Belazzougui et al., J. Comput. Syst. Sci. '21] is a compressed representation of a length-n text that supports access, rank, and select queries while requiring only O(z log n/z) words of space, where z is the number of Lempel-Ziv factors of the text. In other words, its space requirements are asymptotically comparable to those of the compressed text itself. In practice, block trees offer query performance comparable to that of state-of-the-art compressed rank and select indices. However, their construction is significantly slower, and the fastest known construction algorithms additionally require a significant amount of working memory. To address these limitations, we propose fast and lightweight parallel algorithms for the efficient construction of block trees. Our algorithm achieves similar construction speed than the currently fastest block tree construction algorithm on a single core and is up to eight times faster using 64 cores, while requiring an order of magnitude less memory. Overall, we achieve a speedup of up to 15.5 on 64 cores, which is in line with the parallel construction of the Lempel-Ziv compression.
Cite as

Robert Clausecker, Florian Kurpicz, and Etienne Palanga. Practical Parallel Block Tree Construction. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 13:1-13:19, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{clausecker_et_al:LIPIcs.SEA.2026.13,
  author =	{Clausecker, Robert and Kurpicz, Florian and Palanga, Etienne},
  title =	{{Practical Parallel Block Tree Construction}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{13:1--13:19},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.13},
  URN =		{urn:nbn:de:0030-drops-260175},
  doi =		{10.4230/LIPIcs.SEA.2026.13},
  annote =	{Keywords: block tree, shared memory, compression, SIMD, Karp-Rabin fingerprints}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.7
From Relative Compression to Hierarchical Compression

Authors: Philip Bille, Inge Li Gørtz, and Máximo Pérez-López

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
We introduce a framework to use any relative compression algorithm as a subroutine for hierarchical relative compression. In a dataset consisting of n sequences, it consists of constructing a rooted tree on the sequences, using hashing and similarity techniques, and compressing the children of a node relative to their parent. We build up on previous techniques [Bille et al., 2023], and optimize them further for computational efficiency. We test our framework with three existing relative compression algorithms on six genomic datasets, and we show that in datasets that contain heterogeneous data, hierarchical relative compression improves the compression ratio by a factor 2 or more, when compared to relative compression to a single sequence. Apart from compression ratio, we also explore the trade-offs with respect to compression speed, dataset decompression speed, and average sequence decompression speed. With two of the surveyed algorithms, dataset decompression becomes faster and sequence decompression remains practical, at the cost of compression time, which remains competitive for the datasets with highest variability.
Cite as

Philip Bille, Inge Li Gørtz, and Máximo Pérez-López. From Relative Compression to Hierarchical Compression. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 7:1-7:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{bille_et_al:LIPIcs.SEA.2026.7,
  author =	{Bille, Philip and G{\o}rtz, Inge Li and P\'{e}rez-L\'{o}pez, M\'{a}ximo},
  title =	{{From Relative Compression to Hierarchical Compression}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{7:1--7:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.7},
  URN =		{urn:nbn:de:0030-drops-260117},
  doi =		{10.4230/LIPIcs.SEA.2026.7},
  annote =	{Keywords: Relative compression, RLZ, string collections, compressed representation, data structures, efficient algorithms}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.10
Compressing Highly Repetitive Binary Trees with an Application to Range Minimum Queries

Authors: Gabriel Carmona and Filippo Lari

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
Tree compression is a well-studied area that aims at reducing the size of tree representations by exploiting different forms of repetition. While the underlying theory is well understood, there is still significant room for experimental investigation, particularly in the design of compressed representations that efficiently support navigational queries. In this work, we address the problem of designing, engineering, and experimentally evaluating a compression technique for unlabeled binary trees based on repeated subtrees, yielding the minimal Directed Acyclic Graph (DAG) of the input tree. We show how this representation can be computed in linear time and space directly from a succinct encoding of the tree, and how it can be augmented with compact auxiliary data structures to support Lowest Common Ancestor (LCA) queries. When the input tree is the Cartesian tree of an array, LCA queries can be used to answer Range Minimum Queries (RMQs) on the underlying array. This is particularly relevant in the encoding model, where the array is not accessible at query time, and a space lower bound of 2n-O(log n) bits is known. Given the numerous applications of RMQs, we use this problem as a case study for our experimental evaluation, testing our implementation on 11 real-world datasets. Our experiments show that, on almost every dataset, our implementation is the most space-efficient, using as few as 0.11n bits, while still delivering practical query times.
Cite as

Gabriel Carmona and Filippo Lari. Compressing Highly Repetitive Binary Trees with an Application to Range Minimum Queries. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 10:1-10:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{carmona_et_al:LIPIcs.SEA.2026.10,
  author =	{Carmona, Gabriel and Lari, Filippo},
  title =	{{Compressing Highly Repetitive Binary Trees with an Application to Range Minimum Queries}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{10:1--10:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.10},
  URN =		{urn:nbn:de:0030-drops-260140},
  doi =		{10.4230/LIPIcs.SEA.2026.10},
  annote =	{Keywords: tree compression, range minimum query, compact data structures, algorithm engineering, experimental evaluation}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.14
K-Hole Separation in PEO‑Based ILP Treewidth Formulation

Authors: Andrea D'Ascenzo

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
In this paper, we introduce a family of valid inequalities for the strongest currently known integer programming formulation of treewidth based on perfect elimination orderings. These inequalities arise from the structure of induced chordless cycles (holes) and strengthen the canonical linear relaxation by enforcing constraints that every feasible chordal completion must satisfy. To handle the exponentially many such inequalities, we develop a dedicated separation routine capable of detecting violated k-hole constraints within a cutting-plane framework. Our computational results show that incorporating these inequalities substantially improves the quality of the lower bounds across a broad range of graph classes, in some cases nearly closing the integrality gap.
Cite as

Andrea D'Ascenzo. K-Hole Separation in PEO‑Based ILP Treewidth Formulation. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 14:1-14:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{dascenzo:LIPIcs.SEA.2026.14,
  author =	{D'Ascenzo, Andrea},
  title =	{{K-Hole Separation in PEO‑Based ILP Treewidth Formulation}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{14:1--14:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.14},
  URN =		{urn:nbn:de:0030-drops-260186},
  doi =		{10.4230/LIPIcs.SEA.2026.14},
  annote =	{Keywords: Treewidth, Integer Linear Programming, Polyhedral Combinatorics, Chordal Completion, Induced Cycles}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.11
Wavelet Forests Revisited

Authors: Eric Chiu and Dominik Kempa

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
Rank and select queries are basic operations on sequences, with applications in compressed text indexes and other space-efficient data structures. One of the standard data structures supporting these queries is the wavelet tree. In this paper, we study wavelet forests, that is, wavelet-tree structures based on the fixed-block compression boosting technique. Such structures partition the input sequence into fixed-size blocks and build a separate wavelet tree for each block. Previous work showed that this approach yields strong practical performance for rank queries. We extend wavelet forests to support select queries. We show that select support can be added with little additional space overhead and that the resulting structures remain practically efficient. In experiments on a range of non-repetitive and repetitive inputs, wavelet forests are competitive with, and in most cases outperform, standalone wavelet-tree implementations. We also study the effect of internal parameters, including superblock size and navigational data, on select-query performance.
Cite as

Eric Chiu and Dominik Kempa. Wavelet Forests Revisited. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 11:1-11:11, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{chiu_et_al:LIPIcs.SEA.2026.11,
  author =	{Chiu, Eric and Kempa, Dominik},
  title =	{{Wavelet Forests Revisited}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{11:1--11:11},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.11},
  URN =		{urn:nbn:de:0030-drops-260152},
  doi =		{10.4230/LIPIcs.SEA.2026.11},
  annote =	{Keywords: wavelet tree, wavelet forest, select queries}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.15
Computational Generation of Substrate-Specific Molecular Cages

Authors: Noé Demange, Yann Strozecki, and Sandrine Vial

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
In this paper, we propose a method to build molecular cages designed to capture a specific substrate. We model a cage as a graph of atoms with coordinates in space, and several constraints on their edges (degree, length and angle). We use a simple method to place binding patterns which are able to interact with certain parts of the substrate. We then propose an algorithm which considers all possible ways of connecting these binding patterns and try to construct the smallest possible molecular paths realizing these connections. We investigate many variants of our method in order to obtain the most efficient algorithm, able to build cages of more than a hundred atoms.
Cite as

Noé Demange, Yann Strozecki, and Sandrine Vial. Computational Generation of Substrate-Specific Molecular Cages. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 15:1-15:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{demange_et_al:LIPIcs.SEA.2026.15,
  author =	{Demange, No\'{e} and Strozecki, Yann and Vial, Sandrine},
  title =	{{Computational Generation of Substrate-Specific Molecular Cages}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{15:1--15:21},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.15},
  URN =		{urn:nbn:de:0030-drops-260191},
  doi =		{10.4230/LIPIcs.SEA.2026.15},
  annote =	{Keywords: Enumeration, Molecular Cage, Cheminformatics, Geometric Algorithms, Experimental Algorithms}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.12
Fast Select Queries Using Hybrid Bitvectors

Authors: Eric Chiu and Dominik Kempa

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
One of the central problems in the design of compressed data structures is the efficient support for rank and select queries on bitvectors. These two operations form the backbone of more complex data structures used for the compact representation of texts, trees, graphs, or grids. One effective solution is the so-called hybrid bitvector implementation, which partitions the input bitvector into blocks and adaptively selects an encoding method - such as run-length, plain, or minority encoding - based on local redundancy. Experiments have shown that hybrid bitvectors achieve excellent all-around performance on repetitive and non-repetitive inputs. Current hybrid bitvector implementations, however, support only rank queries (i.e., counting the number of ones up to a given position) and lack support for select queries (which ask for the position of a given occurrence of a given bit), which limits their applicability. In this paper, we propose a method to add support for select queries to hybrid bitvectors, and we evaluate the resulting implementation on repetitive and non-repetitive inputs. Our results show that hybrid bitvectors offer very strong all-around performance, combining high query speed with space efficiency and remaining consistently on or near the Pareto frontier.
Cite as

Eric Chiu and Dominik Kempa. Fast Select Queries Using Hybrid Bitvectors. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 12:1-12:11, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{chiu_et_al:LIPIcs.SEA.2026.12,
  author =	{Chiu, Eric and Kempa, Dominik},
  title =	{{Fast Select Queries Using Hybrid Bitvectors}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{12:1--12:11},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.12},
  URN =		{urn:nbn:de:0030-drops-260168},
  doi =		{10.4230/LIPIcs.SEA.2026.12},
  annote =	{Keywords: compressed bitvectors, hybrid bitvector, select queries}
}
Document
DOI: 10.4230/LIPIcs.SEA.2026.9
Bounding the Average Move Structure Query for Faster and Smaller RLBWT Permutations

Authors: Nathaniel K. Brown and Ben Langmead

Published in: LIPIcs, Volume 371, 24th International Symposium on Experimental Algorithms (SEA 2026)

Abstract
The move structure represents permutations with long contiguously permuted intervals in compressed space with optimal query time. They have become an important feature of compressed text indexes using space proportional to the number of Burrows-Wheeler Transform (BWT) runs, often applied in genomics. This is in thanks not only to theoretical improvements over past approaches, but great cache efficiency and average case query time in practice. This is true even without using the worst case guarantees provided by the interval splitting balancing of the original result. In this paper, we show that an even simpler type of splitting, length capping by truncating long intervals, bounds the average move structure query time to optimal whilst obtaining a superior construction time than the traditional approach. This also proves constant query time when amortized over a full traversal of a single cycle permutation from an arbitrary starting position. Such a scheme has surprising benefits both in theory and practice. For a move structure with r runs over a domain n, we replace all O(r log n)-bit components to reduce the overall representation by O(r log r)-bits. The worst case query time is also improved to O(log n/r) without balancing. An O(r)-time and space construction lets us apply the method to run-length encoded BWT (RLBWT) permutations such as LF and ϕ to obtain optimal-time algorithms for BWT inversion and suffix array (SA) enumeration in O(r) working space. Finally, we introduce the Orbit library, providing flexible plug and play move structure support, and use it to evaluate our splitting approach. Experiments find length capping construction is faster and uses less memory than balancing, and results in faster move structure queries: up to ∼ 17 times faster when compared to an unbalanced representation of ϕ. We also see a space reduction in practice, with at least a ∼ 40% disk size decrease for LF across large repetitive genomic collections when compared to a balanced/unbalanced move structure.
Cite as

Nathaniel K. Brown and Ben Langmead. Bounding the Average Move Structure Query for Faster and Smaller RLBWT Permutations. In 24th International Symposium on Experimental Algorithms (SEA 2026). Leibniz International Proceedings in Informatics (LIPIcs), Volume 371, pp. 9:1-9:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2026)

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@InProceedings{brown_et_al:LIPIcs.SEA.2026.9,
  author =	{Brown, Nathaniel K. and Langmead, Ben},
  title =	{{Bounding the Average Move Structure Query for Faster and Smaller RLBWT Permutations}},
  booktitle =	{24th International Symposium on Experimental Algorithms (SEA 2026)},
  pages =	{9:1--9:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-422-2},
  ISSN =	{1868-8969},
  year =	{2026},
  volume =	{371},
  editor =	{Aum\"{u}ller, Martin and Finocchi, Irene},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2026.9},
  URN =		{urn:nbn:de:0030-drops-260136},
  doi =		{10.4230/LIPIcs.SEA.2026.9},
  annote =	{Keywords: Move Structure, Burrows-Wheeler Transform, Permutation}
}
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