Related papers: A simple framework on sorting permutations
The search for similarity and dissimilarity measures on phylogenetic trees has been motivated by the computation of consensus trees, the search by similarity in phylogenetic databases, and the assessment of clustering results in…
The problem of genealogy of permutations has been solved partially by Stefan (odd order) and Acosta-Hum\'anez & Bernhardt (power of two). It is well known that Sharkovskii's theorem shows the relationship between the cardinal of the set of…
Perfect sorting by reversals, a problem originating in computational genomics, is the process of sorting a signed permutation to either the identity or to the reversed identity permutation, by a sequence of reversals that do not break any…
In this paper, we study three applications of recursion to problems in coding and random permutations. First, we consider locally recoverable codes with partial locality and use recursion to estimate the minimum distance of such codes. Next…
Let M(n, d) be the maximum size of a permutation array on n symbols with pairwise Hamming distance at least d. We use various combinatorial, algebraic, and computational methods to improve lower bounds for M(n, d). We compute the Hamming…
The prefix exchange distance of a permutation is the minimum number of exchanges involving the leftmost element that sorts the permutation. We give new combinatorial proofs of known results on the distribution of the prefix exchange…
The problem of genealogy of permutations has been solved partially by Stefan (odd order) and Acosta-Hum\'anez \& Bernhardt (power of two). It is well known that Sharkovskii's theorem shows the relationship between the cardinal of the set of…
We investigate lossy compression (source coding) of data in the form of permutations. This problem has direct applications in the storage of ordinal data or rankings, and in the analysis of sorting algorithms. We analyze the rate-distortion…
The goal of property testing is to quickly distinguish between objects which satisfy a property and objects that are $\epsilon$-far from satisfying the property. There are now several general results in this area which show that natural…
Permutation codes, in the form of rank modulation, have shown promise for applications such as flash memory. One of the metrics recently suggested as appropriate for rank modulation is the Ulam metric, which measures the minimum…
The set of all permutations with $n$ symbols is a symmetric group denoted by $S_n$. A transposition tree, $T$, is a spanning tree over its $n$ vertices $V_T=${$1, 2, 3, \ldots n$} where the vertices are the positions of a permutation $\pi$…
This paper provides a short and transparent solution for the covering cost of white-grey trees which play a crucial role in the algorithm of Bergeron {\it et al.}\ to compute the rearrangement distance between two multichromosomal genomes…
The Distance Geometry Problem (DGP) seeks to find positions for a set of points in geometric space when some distances between pairs of these points are known. The so-called discretization assumptions allow to discretize the search space of…
In this work, we consider the problem of synchronizing two sets of data where the size of the symmetric difference between the sets is small and, in addition, the elements in the symmetric difference are related through the Hamming distance…
The partial transpose of a block matrix M is the matrix obtained by transposing the blocks of M independently. We approach the notion of partial transpose from a combinatorial point of view. In this perspective, we solve some basic…
Modellers of large scale genome rearrangement events, in which segments of DNA are inverted, moved, swapped, or even inserted or deleted, have found a natural syntax in the language of permutations. Despite this, there has been a wide range…
We find exact and asymptotic formulas for the number of pairs $(p,q)$ of $N$-cycles such that the all cycles of the product $p\cdot q$ have lengths from a given integer set. We then apply these results to prove a surprisingly high lower…
The problem of storing permutations in a distributed manner arises in several common scenarios, such as efficient updates of a large, encrypted, or compressed data set. This problem may be addressed in either a combinatorial or a coding…
We study permutation groups of given minimal degree without the classical primitivity assumption. We provide sharp upper bounds on the order of a permutation group of minimal degree m and on the number of its elements of any given support.…
We consider avoidance of permutation patterns with designated gap sizes between pairs of consecutive letters. We call the patterns having such constraints distant patterns (DPs) and we show their relation to other pattern notions…