Related papers: String Representation in Suffixient Set Size Space
This study develops an algorithm to solve a variation of the Shortest Common Superstring (SCS) problem. There are two modifications to the base SCS problem. First, one string in the set S is allowed to have up to K mistakes, defined as not…
This paper introduces the sequence covering similarity, that we formally define for evaluating the similarity between a symbolic sequence (string) and a set of symbolic sequences (strings). From this covering similarity we derive a…
Given a string $T$ of length $n$ over an alphabet $\Sigma\subset \{1,2,\ldots,n^{O(1)}\}$ of size $\sigma$, we are to preprocess $T$ so that given a range $[i,j]$, we can return a representation of a shortest string over $\Sigma$ that is…
A longest repeat query on a string, motivated by its applications in many subfields including computational biology, asks for the longest repetitive substring(s) covering a particular string position (point query). In this paper, we extend…
Minimizers sampling is one of the most widely-used mechanisms for sampling strings [Roberts et al., Bioinformatics 2004]. Let $S=S[1]\ldots S[n]$ be a string over a totally ordered alphabet $\Sigma$. Further let $w\geq 2$ and $k\geq 1$ be…
In many real-world database systems, a large fraction of the data is represented by strings: sequences of letters over some alphabet. This is because strings can easily encode data arising from different sources. It is often crucial to…
The problem called "String reconstruction from substrings" is a mathematical model of sequencing by hybridization that plays an important role in DNA sequencing. In this problem, we are given a blackbox oracle holding an unknown string…
We consider the problem of storing a dynamic string $S$ over an alphabet $\Sigma=\{\,1,\ldots,\sigma\,\}$ in compressed form. Our representation supports insertions and deletions of symbols and answers three fundamental queries:…
Widespread use of string solvers in formal analysis of string-heavy programs has led to a growing demand for more efficient and reliable techniques which can be applied in this context, especially for real-world cases. Designing an…
Let two static sequences of strings $P$ and $S$, representing prefix and suffix conditions respectively, be given as input for preprocessing. For the query, let two positive integers $k_1$ and $k_2$ be given, as well as a string $T$ given…
A well-known fact in the field of lossless text compression is that high-order entropy is a weak model when the input contains long repetitions. Motivated by this, decades of research have generated myriads of so-called dictionary…
Sparse representation over redundant dictionaries constitutes a good model for many classes of signals (e.g., patches of natural images, segments of speech signals, etc.). However, despite its popularity, very little is known about the…
Entropy quantifies the number of bits required to store objects under certain given assumptions. While this is a well established concept for strings, in the context of tries the state-of-the-art regarding entropies is less developed. The…
Compressed sensing is a novel technique where one can recover sparse signals from the undersampled measurements. In this correspondence, a $K \times N$ measurement matrix for compressed sensing is deterministically constructed via additive…
The height of a piecewise-testable language $L$ is the maximum length of the words needed to define $L$ by excluding and requiring given subwords. The height of $L$ is an important descriptive complexity measure that has not yet been…
We show that if DTIME[2^O(n)] is not included in DSPACE[2^o(n)], then, for every set B in PSPACE/poly, all strings x in B of length n can be represented by a string compressed(x) of length at most log(|B^{=n}|)+O(log n), such that a…
The study of strings is an important combinatorial field that precedes the digital computer. Strings can be very long, trillions of letters, so it is important to find compact representations. Here we first survey various forms of one…
Given $n$ pairwise disjoint sets $X_1,\ldots, X_n$, we call the elements of $S=X_1\times\ldots\times X_n$ strings. A nonempty set of strings $W\subseteq S$ is said to be well-connected if for every $v\in W$ and for every $i\, (1\le i\le…
We introduce a uniform representation of general objects that captures the regularities with respect to their structure. It allows a representation of a general class of objects including geometric patterns and images in a sparse, modular,…
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…