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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
Approximating Text-to-Pattern Hamming Distances
Timothy M. Chan, Shay Golan, Tomasz Kociumaka, Tsvi Kopelowitz, · 2020-01-01 · via cs.DS updates on arXiv.org

We revisit a fundamental problem in string matching: given a pattern of length m and a text of length n, both over an alphabet of size $σ$, compute the Hamming distance between the pattern and the text at every location. Several $(1+ε)$-approximation algorithms have been proposed in the literature, with running time of the form $O(ε^{-O(1)}n\log n\log m)$, all using fast Fourier transform (FFT). We describe a simple $(1+ε)$-approximation algorithm that is faster and does not need FFT. Combining our approach with additional ideas leads to numerous new results: - We obtain the first linear-time approximation algorithm; the running time is $O(ε^{-2}n)$. - We obtain a faster exact algorithm computing all Hamming distances up to a given threshold k; its running time improves previous results by logarithmic factors and is linear if $k\le\sqrt m$. - We obtain approximation algorithms with better $ε$-dependence using rectangular matrix multiplication. The time-bound is $Õ(n)$ when the pattern is sufficiently long: $m\ge ε^{-28}$. Previous algorithms require $Õ(ε^{-1}n)$ time. - When k is not too small, we obtain a truly sublinear-time algorithm to find all locations with Hamming distance approximately (up to a constant factor) less than k, in $O((n/k^{Ω(1)}+occ)n^{o(1)})$ time, where occ is the output size. The algorithm leads to a property tester, returning true if an exact match exists and false if the Hamming distance is more than $δm$ at every location, running in $Õ(δ^{-1/3}n^{2/3}+δ^{-1}n/m)$ time. - We obtain a streaming algorithm to report all locations with Hamming distance approximately less than k, using $Õ(ε^{-2}\sqrt k)$ space. Previously, streaming algorithms were known for the exact problem with Õ(k) space or for the approximate problem with $Õ(ε^{-O(1)}\sqrt m)$ space.