Related papers: Fast Algorithms for Finding Pattern Avoiders and C…
Given a permutation $\pi$, let $\text{Av}_n(\pi)$ be the number of permutations of length $n$ that avoid $\pi$ as a subpermutation. The celebrated resolution of the Stanley-Wilf conjecture by Marcus and Tardos confirmed that the limit…
An old open problem in graph drawing asks for the size of a universal point set, a set of points that can be used as vertices for straight-line drawings of all n-vertex planar graphs. We connect this problem to the theory of permutation…
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…
We show how to generate random derangements efficiently by two different techniques: random restricted transpositions and sequential importance sampling. The algorithm employing restricted transpositions can also be used to generate random…
We introduce the first index that can be built in $o(n)$ time for a text of length $n$, and can also be queried in $o(q)$ time for a pattern of length $q$. On an alphabet of size $\sigma$, our index uses $O(n\sqrt{\log n\log\sigma})$ bits,…
We revisit two well-known algorithmic problems on strings: computing a shortest unique substring (SUS) and a shortest absent substring (SAS) of a string $S$ of length $n$. Both problems admit folklore $\mathcal{O}(n)$-time solutions using…
We introduce consecutive-pattern-avoiding stack-sorting maps $\text{SC}_\sigma$, which are natural generalizations of West's stack-sorting map $s$ and natural analogues of the classical-pattern-avoiding stack-sorting maps $s_\sigma$…
We use various combinatorial and probabilistic techniques to study growth rates for the probability that a random permutation from the Mallows distribution avoids consecutive patterns. The Mallows distribution behaves like a $q$-analogue of…
In the $(k,m)$-mappability problem, for a given sequence $T$ of length $n$, the goal is to compute a table whose $i$th entry is the number of indices $j \ne i$ such that the length-$m$ substrings of $T$ starting at positions $i$ and $j$…
A recently discovered universal rank-based matrix method to extract trends from noisy time series is described in [1] but the formula for the output matrix elements, implemented there as an open-access supplement MATLAB computer code, is…
We study the impartial game PAP (``permutations avoiding patterns''), in which players take turns choosing patterns to avoid. We define a set of length $k$ patterns, $B_k$, and show that it is the unique minimal monotone-forcing subset of…
Enumeration of pattern-avoiding objects is an active area of study with connections to such disparate regions of mathematics as Schubert varieties and stack-sortable sequences. Recent research in this area has brought attention to colored…
We present an efficient algorithm for finding all approximate occurrences of a given pattern $p$ of length $m$ in a text $t$ of length $n$ allowing for translocations of equal length adjacent factors and inversions of factors. The algorithm…
A palindromic substring $T[i.. j]$ of a string $T$ is said to be a shortest unique palindromic substring (SUPS) in $T$ for an interval $[p, q]$ if $T[i.. j]$ is a shortest palindromic substring such that $T[i.. j]$ occurs only once in $T$,…
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…
Multidimensional permutations, or $d$-permutations, are represented by their diagrams on $[n]^d$ such that there exists exactly one point per hyperplane $x_i$ that satisfies $x_i= j$ for $i \in [d]$ and $j \in [n]$. Bonichon and Morel…
Let $t$ be a permutation (that shall play the role of the {\em text}) on $[n]$ and a pattern $p$ be a sequence of $m$ distinct integer(s) of $[n]$, $m\leq n$. The pattern $p$ occurs in $t$ in position $i$ if and only if $p_1... p_m$ is…
We study dynamic $(1+\epsilon)$-approximation algorithms for the all-pairs shortest paths problem in unweighted undirected $n$-node $m$-edge graphs under edge deletions. The fastest algorithm for this problem is a randomized algorithm with…
We investigate the problem of succinctly representing an arbitrary permutation, \pi, on {0,...,n-1} so that \pi^k(i) can be computed quickly for any i and any (positive or negative) integer power k. A representation taking (1+\epsilon) n lg…
The $k$-mismatch problem consists in computing the Hamming distance between a pattern $P$ of length $m$ and every length-$m$ substring of a text $T$ of length $n$, if this distance is no more than $k$. In many real-world applications, any…