Related papers: Cell-Probe Bounds for Online Edit Distance and Oth…
A quasi-Gray code of dimension $n$ and length $\ell$ over an alphabet $\Sigma$ is a sequence of distinct words $w_1,w_2,\dots,w_\ell$ from $\Sigma^n$ such that any two consecutive words differ in at most $c$ coordinates, for some fixed…
We study edit distance computation with preprocessing: the preprocessing algorithm acts on each string separately, and then the query algorithm takes as input the two preprocessed strings. This model is inspired by scenarios where we would…
In this paper we obtain some bounds on communication complexity of Gap Hamming Distance problem ($\mathsf{GHD}^n_{L, U}$): Alice and Bob are given binary string of length $n$ and they are guaranteed that Hamming distance between their…
We study the online variant of the language distance problem for two classical formal languages, the language of palindromes and the language of squares, and for the two most fundamental distances, the Hamming distance and the edit…
Given a stream of items each associated with a numerical value, its edit distance to monotonicity is the minimum number of items to remove so that the remaining items are non-decreasing with respect to the numerical value. The space…
Single-cell omics enable the profiles of cells, which contain large numbers of biological features, to be quantified. Cluster analysis, a dimensionality reduction process, is used to reduce the dimensions of the data to make it…
We describe a novel extension of subspace codes for noncoherent networks, suitable for use when the network is viewed as a communication system that introduces both dimension and symbol errors. We show that when symbol erasures occur in a…
Finding an Approximate Longest Common Substring (ALCS) within a given set $S=\{s_1,s_2,\ldots,s_m\}$ of $m \ge 2$ strings is a key problem in computational biology, such as identifying related mutations across multiple genetic sequences. We…
We study sublinear algorithms for two fundamental graph problems, MAXCUT and correlation clustering. Our focus is on constructing core-sets as well as developing streaming algorithms for these problems. Constant space algorithms are known…
Trace reconstruction considers the task of recovering an unknown string $x \in \{0,1\}^n$ given a number of independent "traces", i.e., subsequences of $x$ obtained by randomly and independently deleting every symbol of $x$ with some…
In this paper, we study the role non-adaptivity plays in maintaining dynamic data structures. Roughly speaking, a data structure is non-adaptive if the memory locations it reads and/or writes when processing a query or update depend only on…
The normalized edit distance is one of the distances derived from the edit distance. It is useful in some applications because it takes into account the lengths of the two strings compared. The normalized edit distance is not defined in…
Ahlswede and Katona (1977) posed the following isodiametric problem in Hamming spaces: For every $n$ and $1\le M\le2^{n}$, determine the minimum average Hamming distance of binary codes with length $n$ and size $M$. Fu, Wei, and Yeung…
The trace reconstruction problem studies the number of noisy samples needed to recover an unknown string $\boldsymbol{x}\in\{0,1\}^n$ with high probability, where the samples are independently obtained by passing $\boldsymbol{x}$ through a…
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…
Several issues in machine learning and inverse problems require to generate discrete data, as if sampled from a model probability distribution. A common way to do so relies on the construction of a uniform probability distribution over a…
We build upon the recent papers by Weinstein and Yu (FOCS'16), Larsen (FOCS'12), and Clifford et al. (FOCS'15) to present a general framework that gives amortized lower bounds on the update and query times of dynamic data structures. Using…
We study approximation algorithms for the following three string measures that are widely used in practice: edit distance (ED), longest common subsequence (LCS), and longest increasing sequence (LIS). All three problems can be solved…
The distance of a graph from being triangle-free is a fundamental graph parameter, counting the number of edges that need to be removed from a graph in order for it to become triangle-free. Its corresponding computational problem is the…
We study algorithms for online linear optimization in Hilbert spaces, focusing on the case where the player is unconstrained. We develop a novel characterization of a large class of minimax algorithms, recovering, and even improving,…