Related papers: On Stricter Reachable Repetitiveness Measures*
We show that the size $\gamma(t_n)$ of the smallest string attractor of the $n$th Thue-Morse word $t_n$ is 4 for any $n\geq 4$, disproving the conjecture by Mantaci et al. [ICTCS 2019] that it is $n$. We also show that $\delta(t_n) =…
Let $S$ be a string of length $n$. In this paper we introduce the notion of \emph{string attractor}: a subset of the string's positions $[1,n]$ such that every distinct substring of $S$ has an occurrence crossing one of the attractor's…
We investigate the longest common substring problem for encoded sequences and its asymptotic behaviour. The main result is a strong law of large numbers for a re-scaled version of this quantity, which presents an explicit relation with the…
Replicability requires that algorithmic conclusions remain consistent when rerun on independently drawn data. A central structural question is composition: given $k$ problems each admitting a $\rho$-replicable algorithm with sample…
In this paper we extend to two-dimensional data two recently introduced one-dimensional compressibility measures: the $\gamma$ measure defined in terms of the smallest string attractor, and the $\delta$ measure defined in terms of the…
We show that Closest Substring, one of the most important problems in the field of biological sequence analysis, is W[1]-hard when parameterized by the number k of input strings (and remains so, even over a binary alphabet). This problem is…
In this work, we introduce a notion of reachability entropy to characterize the smallest data rate which is sufficient enough to enforce reach-while-stay specification. We also define data rates of coder-controllers that can enforce this…
Neural networks achieve outstanding accuracy in classification and regression tasks. However, understanding their behavior still remains an open challenge that requires questions to be addressed on the robustness, explainability and…
We propose novel algorithms for sequence prediction based on ideas from stringology. These algorithms are time and space efficient and satisfy mistake bounds related to particular stringological complexity measures of the sequence. In this…
A sequence $x_1,\dots,x_n,\dots$ of discrete-valued observations is generated according to some unknown probabilistic law (measure) $\mu$. After observing each outcome, one is required to give conditional probabilities of the next…
A resolving set for a graph $\Gamma$ is a collection of vertices $S$, chosen so that for each vertex $v$, the list of distances from $v$ to the members of $S$ uniquely specifies $v$. The metric dimension $\mu(\Gamma)$ is the smallest size…
A prominent tool in many problems involving metric spaces is a notion of randomized low-diameter decomposition. Loosely speaking, $\beta$-decomposition refers to a probability distribution over partitions of the metric into sets of low…
The notion of string attractor has been introduced in [Kempa and Prezza, 2018] in the context of Data Compression and it represents a set of positions of a finite word in which all of its factors can be "attracted". The smallest size…
In the wake of the explosive growth in smartphones and cyberphysical systems, there has been an accelerating shift in how data is generated away from centralised data towards on-device generated data. In response, machine learning…
The problem of reconstructing a sequence from the set of its length-$k$ substrings has received considerable attention due to its various applications in genomics. We study an uncoded version of this problem where multiple random sources…
Set Shaping Theory (SST) moves beyond the classical fixed-space model by constructing bijective mappings the original sequence set into structured regions of a larger sequence space. These shaped subsets are characterized by a reduced…
In this paper, we propose a sequence-to-set method that can transform any sequence generative model based on maximum likelihood to a set generative model where we can evaluate the utility/probability of any set. An efficient importance…
We raise the question of approximating the compressibility of a string with respect to a fixed compression scheme, in sublinear time. We study this question in detail for two popular lossless compression schemes: run-length encoding (RLE)…
Motivated by the imminent growth of massive, highly redundant genomic databases, we study the problem of compressing a string database while simultaneously supporting fast random access, substring extraction and pattern matching to the…
Longest Run Subsequence is a problem introduced recently in the context of the scaffolding phase of genome assembly (Schrinner et al., WABI 2020). The problem asks for a maximum length subsequence of a given string that contains at most one…