Related papers: Methods of computing deque sortable permutations g…
In this work, we consider a restricted case of the well studied Sorting by Block Interchanges problem. We put an upper bound k on the length of the blocks (substrings) to be interchanged at each step. We call the problem Sorting by k-Block…
Given a pattern $P$ and a text $T$, both strings over a binary alphabet, the binary jumbled string matching problem consists in telling whether any permutation of $P$ occurs in $T$. The indexed version of this problem, i.e., preprocessing a…
Given a sequence of $n$ numbers and $k$ parallel First-in-First-Out (FIFO) queues, how close can one bring the sequence to sorted order? It is known that $k$ queues suffice to sort the sequence if the Longest Decreasing Subsequence (LDS) of…
Generalized sorting problem, also known as sorting with forbidden comparisons, was first introduced by Huang et al. together with a randomized algorithm which requires $\tilde O(n^{3/2})$ probes. We study this problem with additional…
Assembling genomic sequences from a set of overlapping reads is one of the most fundamental problems in computational biology. Algorithms addressing the assembly problem fall into two broad categories -- based on the data structures which…
We describe and analyze Zig-zag Sort--a deterministic data-oblivious sorting algorithm running in O(n log n) time that is arguably simpler than previously known algorithms with similar properties, which are based on the AKS sorting network.…
Non-parametric two-sample tests based on energy distance or maximum mean discrepancy are widely used statistical tests for comparing multivariate data from two populations. While these tests enjoy desirable statistical properties, their…
We present an algorithm, called BiSC, that describes the patterns avoided by a given set of permutations. It automatically conjectures the statements of known theorems such as the descriptions of stack-sortable (Knuth 1975) and…
We present the first in-place algorithm for sorting an array of size n that performs, in the worst case, at most O(n log n) element comparisons and O(n) element transports. This solves a long-standing open problem, stated explicitly, e.g.,…
Merging-based sorting networks are an important family of sorting networks. Most merge sorting networks are based on 2-way or multi-way merging algorithms using 2-sorters as basic building blocks. An alternative is to use n-sorters, instead…
Common intervals have been defined as a modelisation of gene clusters in genomes represented either as permutations or as sequences. Whereas optimal algorithms for finding common intervals in permutations exist even for an arbitrary number…
An oracle chooses a function $f$ from the set of $n$ bits strings to itself, which is either a randomly chosen permutation or a randomly chosen function. When queried by an $n$-bit string $w$, the oracle computes $f(w)$, truncates the $m$…
We collect open problems in permutation patterns on four themes: rank-unimodality in the permutation pattern poset, Wilf-equivalence and shape-Wilf-equivalence, the enumeration of derangements in permutation classes, and sorting by stacks…
In this paper, we describe randomized Shellsort--a simple, randomized, data-oblivious version of the Shellsort algorithm that always runs in O(n log n) time and, as we show, succeeds in sorting any given input permutation with very high…
In 1916, MacMahon showed that permutations in $S_n$ with a fixed descent set $I$ are enumerated by a polynomial $d_I(n)$. Diaz-Lopez, Harris, Insko, Omar, and Sagan recently revived interest in this descent polynomial, and suggested the…
A wide range of applications, most notably in comparative genomics, involve the computation of a shortest sorting sequence of operations for a given permutation, where the set of allowed operations is fixed beforehand. Such sequences are…
In this article, we describe an algorithm to determine whether a permutation class C given by a finite basis B of excluded patterns contains a finite number of simple permutations. This is a continuation of the work initiated in [Brignall,…
Frequently, randomly organized data is needed to avoid an anomalous operation of other algorithms and computational processes. An analogy is that a deck of cards is ordered within the pack, but before a game of poker or solitaire the deck…
We study the optimal scaling of the expected total queue size in an $n\times n$ input-queued switch, as a function of the number of ports $n$ and the load factor $\rho$, which has been conjectured to be $\Theta (n/(1-\rho))$. In a recent…
Flip-sort is a natural sorting procedure which raises fascinating combinatorial questions. It finds its roots in the seminal work of Knuth on stack-based sorting algorithms and leads to many links with permutation patterns. We present…