Related papers: Enhanced Covers of Regular & Indeterminate Strings…

A deterministic BSP algorithm for constructing the suffix array of a given string is presented, based on a technique which we call accelerated sampling. It runs in optimal O(n/p) local computation and communication, and requires a near…

Indexing very large collections of strings, such as those produced by the widespread next generation sequencing technologies, heavily relies on multistring generalization of the Burrows-Wheeler Transform (BWT): large requirements of…

We present a 1.8334-approximation algorithm for Vertex Cover on string graphs given with a representation, which takes polynomial time in the size of the representation; the exact approximation factor is $11/6$. Recently, the barrier of 2…

A new class of folded subspace codes for noncoherent network coding is presented. The codes can correct insertions and deletions beyond the unique decoding radius for any code rate $R\in[0,1]$. An efficient interpolation-based decoding…

A $\lambda$-cover of a string $S$ is a set of strings $\{C_i\}_1^\lambda$ such that every index in $S$ is contained in an occurrence of at least one string $C_i$. The existence of a $1$-cover defines a well-known class of quasi-periodic…

In the Maximum Duo-Preservation String Mapping problem we are given two strings and wish to map the letters of the former to the letters of the latter so as to maximise the number of duos. A duo is a pair of consecutive letters that is…

We present several results about position heaps, a relatively new alternative to suffix trees and suffix arrays. First, we show that, if we limit the maximum length of patterns to be sought, then we can also limit the height of the heap and…

The genome rearrangement problem computes the minimum number of operations that are required to sort all elements of a permutation. A block-interchange operation exchanges two blocks of a permutation which are not necessarily adjacent and…

Semidefinite programming (SDP) is a unifying framework that generalizes both linear programming and quadratically-constrained quadratic programming, while also yielding efficient solvers, both in theory and in practice. However, there exist…

Previous work identifying depth-optimal $n$-channel sorting networks for $9\leq n \leq 16$ is based on exploiting symmetries of the first two layers. However, the naive generate-and-test approach typically applied does not scale. This paper…

Error-correcting codes resilient to synchronization errors such as insertions and deletions are known as insdel codes. Due to their important applications in DNA storage and computational biology, insdel codes have recently become a focal…

Huffman coding finds an optimal prefix code for a given probability mass function. Consider situations in which one wishes to find an optimal code with the restriction that all codewords have lengths that lie in a user-specified set of…

Let $P = \{p(i)\}$ be a measure of strictly positive probabilities on the set of nonnegative integers. Although the countable number of inputs prevents usage of the Huffman algorithm, there are nontrivial $P$ for which known methods find a…

Sequence representations supporting queries $access$, $select$ and $rank$ are at the core of many data structures. There is a considerable gap between the various upper bounds and the few lower bounds known for such representations, and how…

Several fundamental tasks in data science rely on computing an extremal eigenspace of size $r \ll n$, where $n$ is the underlying problem dimension. For example, spectral clustering and PCA both require the computation of the leading…

In [1], whether a target binary string s can be represented from a boolean formula with operands chosen from a set of binary strings W was studied. In this paper, we first examine selecting a maximum subset X from W, so that for any string…

Given an array A containing arbitrary (positive and negative) numbers, we consider the problem of supporting range maximum-sum segment queries on A: i.e., given an arbitrary range [i,j], return the subrange [i' ,j' ] \subseteq [i,j] such…

Strings in the real world are often encoded with some level of uncertainty. In the character-level uncertainty model, an uncertain string $X$ of length $n$ on an alphabet $\Sigma$ is a sequence of $n$ probability distributions over…

Index coding, or broadcasting with side information, is a network coding problem of most fundamental importance. In this problem, given a directed graph, each vertex represents a user with a need of information, and the neighborhood of each…

Unsupervised learning allows us to leverage unlabelled data, which has become abundantly available, and to create embeddings that are usable on a variety of downstream tasks. However, the typical lack of interpretability of unsupervised…