Related papers: Towards a Definitive Compressibility Measure for R…
The definition of $k^{th}$-order empirical entropy of strings is extended to node labelled binary trees. A suitable binary encoding of tree straight-line programs (that have been used for grammar-based tree compression before) is shown to…
The goal of grammar compression is to construct a small sized context free grammar which uniquely generates the input text data. Among grammar compression methods, RePair is known for its good practical compression performance. MR-RePair…
Compressive sampling offers a new paradigm for acquiring signals that are compressible with respect to an orthonormal basis. The major algorithmic challenge in compressive sampling is to approximate a compressible signal from noisy samples.…
We study universal compression of sequences generated by monotonic distributions. We show that for a monotonic distribution over an alphabet of size $k$, each probability parameter costs essentially $0.5 \log (n/k^3)$ bits, where $n$ is the…
Dynamic Time Warping (DTW) is a widely used similarity measure for comparing strings that encode time series data, with applications to areas including bioinformatics, signature verification, and speech recognition. The standard…
Relative Lempel-Ziv (RLZ) parsing is a dictionary compression method in which a string $S$ is compressed relative to a second string $R$ (called the reference) by parsing $S$ into a sequence of substrings that occur in $R$. RLZ is…
A Valued Constraint Satisfaction Problem (VCSP) provides a common framework that can express a wide range of discrete optimization problems. A VCSP instance is given by a finite set of variables, a finite domain of labels, and an objective…
We investigate adaptive sublinear algorithms for detecting monotone patterns in an array. Given fixed $2 \leq k \in \mathbb{N}$ and $\varepsilon > 0$, consider the problem of finding a length-$k$ increasing subsequence in an array $f \colon…
A new framework of compressive sensing (CS), namely statistical compressive sensing (SCS), that aims at efficiently sampling a collection of signals that follow a statistical distribution and achieving accurate reconstruction on average, is…
Traditionally, data compression deals with the problem of concisely representing a data source, e.g. a sequence of letters, for the purpose of eventual reproduction (either exact or approximate). In this work we are interested in the case…
Given a string of length $n$ that is composed of $r$ runs of letters from the alphabet $\{0,1,\ldots,\sigma{-}1\}$ such that $2 \le \sigma \le r$, we describe a data structure that, provided $r \le n / \log^{\omega(1)} n$, stores the string…
A practical measure for the complexity of sequences of symbols (``strings'') is introduced that is rooted in automata theory but avoids the problems of Kolmogorov-Chaitin complexity. This physical complexity can be estimated for ensembles…
The purpose of this paper is to estimate the intensity of a Poisson process $N$ by using thresholding rules. In this paper, the intensity, defined as the derivative of the mean measure of $N$ with respect to $ndx$ where $n$ is a fixed…
In this paper we present $LCSk$++: a new metric for measuring the similarity of long strings, and provide an algorithm for its efficient computation. With ever increasing size of strings occuring in practice, e.g. large genomes of plants…
We introduce the first grammar-compressed representation of a sequence that supports searches in time that depends only logarithmically on the size of the grammar. Given a text $T[1..u]$ that is represented by a (context-free) grammar of…
This article extends the concept of compressed sensing to signals that are not sparse in an orthonormal basis but rather in a redundant dictionary. It is shown that a matrix, which is a composition of a random matrix of certain type and a…
Despite consistently yielding the best compression on repetitive text collections, the Lempel-Ziv parsing has resisted all attempts at offering relevant guarantees on the cost to access an arbitrary symbol. This makes it less attractive for…
We present novel variants of fully online LCA (FOLCA), a fully online grammar compression that builds a straight line program (SLP) and directly encodes it into a succinct representation in an online manner. FOLCA enables a direct encoding…
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…
Squares (fragments of the form $xx$, for some string $x$) are arguably the most natural type of repetition in strings. The basic algorithmic question concerning squares is to check if a given string of length $n$ is square-free, that is,…