Related papers: An In-place Framework for Exact and Approximate Sh…
Edit distance similarity search, also called approximate pattern matching, is a fundamental problem with widespread database applications. The goal of the problem is to preprocess $n$ strings of length $d$, to quickly answer queries $q$ of…
While well-known methods to list the intersections of either a list of segments or a complex polygon aim at achieving optimal time-complexity they often do so at the cost of memory comsumption and complex code. Real-life software…
First, for the for the submodular $k$-secretary problem with shortlists [1], we provide a near optimal $1-1/e-\epsilon$ approximation using shortlist of size $O(k poly(1/\epsilon))$. In particular, we improve the size of shortlist used in…
The Average Common Substring (ACS) is a popular alignment-free distance measure for phylogeny reconstruction. The ACS can be computed in O(n) space and time, where n=x+y is the input size. The compressed string matching is the study of…
It has been shown in the indexing literature that there is an essential difference between prefix/range searches on the one hand, and predecessor/rank searches on the other hand, in that the former provably allows faster query resolution.…
We revisit the classic combinatorial pattern matching problem of finding a longest common subsequence (LCS). For strings $x$ and $y$ of length $n$, a textbook algorithm solves LCS in time $O(n^2)$, but although much effort has been spent,…
This paper develops a new storage-optimal algorithm that provably solves generic semidefinite programs (SDPs) in standard form. This method is particularly effective for weakly constrained SDPs. The key idea is to formulate an approximate…
Given a set of $n$ points in the plane, and a parameter $k$, we consider the problem of computing the minimum (perimeter or area) axis-aligned rectangle enclosing $k$ points. We present the first near quadratic time algorithm for this…
We study the query complexity of exactly reconstructing a string from adaptive queries, such as substring, subsequence, and jumbled-index queries. Such problems have applications, e.g., in computational biology. We provide a number of new…
We study the problem of approximate near neighbor (ANN) search and show the following results: - An improved framework for solving the ANN problem using locality-sensitive hashing, reducing the number of evaluations of locality-sensitive…
Compressed indexing is a powerful technique that enables efficient querying over data stored in compressed form, significantly reducing memory usage and often accelerating computation. While extensive progress has been made for…
Text indexing is a fundamental and well-studied problem. Classic solutions either replace the original text with a compressed representation, e.g., the FM-index and its variants, or keep it uncompressed but attach some redundancy - an index…
We propose efficient algorithms for enumerating maximal common subsequences (MCSs) of two strings. Efficiency of the algorithms are estimated by the preprocessing-time, space, and delay-time complexities. One algorithm prepares a…
In the Shortest Common Superstring (SCS) problem, one is given a collection of strings, and needs to find a shortest string containing each of them as a substring. SCS admits $2\frac{11}{23}$-approximation in polynomial time (Mucha,…
Real-world data often comes in compressed form. Analyzing compressed data directly (without decompressing it) can save space and time by orders of magnitude. In this work, we focus on fundamental sequence comparison problems and try to…
Near neighbor search (NNS) is a powerful abstraction for data access; however, data indexing is troublesome even for approximate indexes. For intrinsically high-dimensional data, high-quality fast searches demand either indexes with…
Subspace segmentation or subspace learning is a challenging and complicated task in machine learning. This paper builds a primary frame and solid theoretical bases for the minimal subspace segmentation (MSS) of finite samples. Existence and…
A string matching -- and more generally, sequence matching -- algorithm is presented that has a linear worst-case computing time bound, a low worst-case bound on the number of comparisons (2n), and sublinear average-case behavior that is…
We study the problems of finding a shortest synchronizing word and its length for a given prefix code. This is done in two different settings: when the code is defined by an arbitrary decoder recognizing its star and when the code is…
Define Minimum Soapy Union (MinSU) as the following optimization problem: given a $k$-tuple $(X_1, X_2,..., X_k)$ of finite integer sets, find a $k$-tuple $(t_1, t_2,..., t_k)$ of integers that minimizes the cardinality of $(X_1 + t_1) \cup…