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PAC Learning with Bandit Feedback: Sharp Sample Complexity in the Realizable Setting Algorithms with Polynomially-Improved Approximation Factors for the $2 \rightarrow q$ Norm, and Applications A computational phase transition for learning-to-sample from Ising models Covering vertices by sequential stars Fermi-Dirac machines as quantizations of neurons A Comprehensive Evaluation of Vertex Elimination Algorithms for Algorithmic Differentiation A Tight Bound on Localization of Electrical Flows Optimal Dimension-Free Sampling for Regularized Classification Reducing the Randomness in Partition Oracles for Bounded Degree Minor-Free Graphs Beyond the Half-Approximation: Fair and Efficient Online Class Matching Efficient Uniform Sampling of Surjections via their Profiles Tractable Maximization of Budgeted Phylogenetic Diversity on Networks Utilizing Node Scanwidth Fairness in Aggregation: Optimal Top-$k$ and Improved Full Ranking Learning-Augmented Online Scheduling with Parsimonious Preemption Entropy Equivalence Testing Lumberjack: Better Differentially Private Random Forests through Heavy Hitter Detection in Trees The Secretary Problem with a Stochastic Precursor Polynomial-Time Robust Multiclass Linear Classification under Gaussian Marginals Efficient Banzhaf-Based Data Valuation for $k$-Nearest Neighbors Classification Block-Sphere Vector Quantization An Approximation Algorithm for Graph Label Selection Iterative Chow Filtering for Learning with Distribution Shift Complexity of Non-Log-Concave Sampling in Fisher Information Stochastic Matching via Local Sparsification Finite Sample Bounds for Learning with Score Matching What is Learnable in Valiant's Theory of the Learnable? Provable Quantization with Randomized Hadamard Transform Min-Max Optimization Requires Exponentially Many Queries Fast and Compact Graph Cuts for the Boykov-Kolmogorov Algorithm A proximal gradient algorithm for composite log-concave sampling
Small space and streaming pattern matching with k edits
Tomasz Kociumaka, Ely Porat, Tatiana Starikovskaya · 2021-06-11 · via cs.DS updates on arXiv.org

In this work, we revisit the fundamental and well-studied problem of approximate pattern matching under edit distance. Given an integer $k$, a pattern $P$ of length $m$, and a text $T$ of length $n \ge m$, the task is to find substrings of $T$ that are within edit distance $k$ from $P$. Our main result is a streaming algorithm that solves the problem in $\tilde{O}(k^5)$ space and $\tilde{O}(k^8)$ amortised time per character of the text, providing answers correct with high probability. (Hereafter, $\tilde{O}(\cdot)$ hides a $\mathrm{poly}(\log n)$ factor.) This answers a decade-old question: since the discovery of a $\mathrm{poly}(k\log n)$-space streaming algorithm for pattern matching under Hamming distance by Porat and Porat [FOCS 2009], the existence of an analogous result for edit distance remained open. Up to this work, no $\mathrm{poly}(k\log n)$-space algorithm was known even in the simpler semi-streaming model, where $T$ comes as a stream but $P$ is available for read-only access. In this model, we give a deterministic algorithm that achieves slightly better complexity. In order to develop the fully streaming algorithm, we introduce a new edit distance sketch parametrised by integers $n\ge k$. For any string of length at most $n$, the sketch is of size $\tilde{O}(k^2)$ and it can be computed with an $\tilde{O}(k^2)$-space streaming algorithm. Given the sketches of two strings, in $\tilde{O}(k^3)$ time we can compute their edit distance or certify that it is larger than $k$. This result improves upon $\tilde{O}(k^8)$-size sketches of Belazzougui and Zhu [FOCS 2016] and very recent $\tilde{O}(k^3)$-size sketches of Jin, Nelson, and Wu [STACS 2021].