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A degenerate or indeterminate string on an alphabet $\Sigma$ is a sequence of non-empty subsets of $\Sigma$. Given a degenerate string $t$ of length $n$, we present a new method based on the Burrows--Wheeler transform for searching for a…
We develop a new framework for generalizing approximation algorithms from the structural graph algorithm literature so that they apply to graphs somewhat close to that class (a scenario we expect is common when working with real-world…
We present probabilistic arithmetic automata (PAAs), a general model to describe chains of operations whose operands depend on chance, along with two different algorithms to exactly calculate the distribution of the results obtained by such…
Much of the power of probabilistic methods in modelling language comes from their ability to compare several derivations for the same string in the language. An important starting point for the study of such cross-derivational properties is…
The problem of Text Indexing is a fundamental algorithmic problem in which one wishes to preprocess a text in order to quickly locate pattern queries within the text. In the ever evolving world of dynamic and on-line data, there is also a…
For an arbitrary word $w$ on an alphabet, we can define the alternating symbol graph, $G(w)$, as the graph in which the edge $(a, b)$ is in $E$ iff the letters $a$ and $b$ alternate in the word $w$. A graph $G = (V, E)$ is said to be…
Language models for speech recognition typically use a probability model of the form Pr(a_n | a_1, a_2, ..., a_{n-1}). Stochastic grammars, on the other hand, are typically used to assign structure to utterances. A language model of the…
Consider a random graph process with $n$ vertices corresponding to points $v_{i} \sim {Unif}[0,1]$ embedded randomly in the interval, and where edges are inserted between $v_{i}, v_{j}$ independently with probability given by the graphon…
In this work, we exploit the power of \emph{finite ambiguity} for the complementation problem of B\"uchi automata by using reduced run directed acyclic graphs (DAGs) over infinite words, in which each vertex has at most one predecessor;…
We consider the problem of encoding a string of length $n$ from an integer alphabet of size $\sigma$ so that access and substring equality queries (that is, determining the equality of any two substrings) can be answered efficiently. Any…
A mixed dominating set is a collection of vertices and edges that dominates all vertices and edges of a graph. We study the complexity of exact and parameterized algorithms for \textsc{Mixed Dominating Set}, resolving some open questions.…
The circular dictionary matching problem is an extension of the classical dictionary matching problem where every string in the dictionary is interpreted as a circular string: after reading the last character of a string, we can move back…
Given a pattern string $P$ of length $n$ and a query string $T$ of length $m$, where the characters of $P$ and $T$ are drawn from an alphabet of size $\Delta$, the {\em exact string matching} problem consists of finding all occurrences of…
In some applications of matching, the structural or hierarchical properties of the two graphs being aligned must be maintained. The hierarchical properties are induced by the direction of the edges in the two directed graphs. These…
A weighted string over an alphabet of size $\sigma$ is a string in which a set of letters may occur at each position with respective occurrence probabilities. Weighted strings, also known as position weight matrices or uncertain sequences,…
Indexing strings via prefix (or suffix) sorting is, arguably, one of the most successful algorithmic techniques developed in the last decades. Can indexing be extended to languages? The main contribution of this paper is to initiate the…
A labeled tree (or a trie) is a natural generalization of a string, which can also be seen as a compact representation of a set of strings. This paper considers the labeled tree indexing problem, and provides a number of new results on…
In a recent article by Chapuy and Perarnau, it was shown that a uniformly chosen automaton on $n$ states with a $2$-letter alphabet has a synchronizing word of length $O(\sqrt{n}\log n)$ with high probability. In this note, we improve this…
Width parameterizations of SAT, such as tree-width and path-width, enable the study of computationally more tractable and practical SAT instances. We give two simple algorithms. One that runs simultaneously in time-space…
The number of zeros and the number of ones in a binary string are referred to as the composition of the string, and the prefix-suffix compositions of a string are a multiset formed by the compositions of the prefixes and suffixes of all…