相关论文: Reconstruction of permutations distorted by single…
A \emph{trace} of a sequence is generated by deleting each bit of the sequence independently with a fixed probability. The well-studied \emph{trace reconstruction} problem asks how many traces are required to reconstruct an unknown binary…
The Cayley distance between two permutations $\pi, \sigma \in S_n$ is the minimum number of \textit{transpositions} required to obtain the permutation $\sigma$ from $\pi$. When we only allow adjacent transpositions, the minimum number of…
A problem of practical and theoretical interest is to determine or estimate the diameter of various families of Cayley networks. The previously known estimate for the diameter of Cayley graphs generated by transposition trees is an upper…
Given a graph drawn in the plane, the degenerate crossing number of the drawing is the number of points in the plane which are contained in the relative interior of at least two edges, where each edge is required to be drawn as a simple…
There are several approaches to study occurrences of consecutive patterns in permutations such as the inclusion-exclusion method, the tree representations of permutations, the spectral approach and others. We propose yet another approach to…
In comparative genomics, a transposition is an operation that exchanges two consecutive sequences of genes in a genome. The transposition distance, that is, the minimum number of transpositions needed to transform a genome into another, is,…
Symmetry breaking for graphs and other combinatorial objects is notoriously hard. On the one hand, complete symmetry breaks are exponential in size. On the other hand, current, state-of-the-art, partial symmetry breaks are often considered…
We study the problem of reconstructing a hidden graph given access to a distance oracle. We design randomized algorithms for the following problems: reconstruction of a degree bounded graph with query complexity $\tilde{O}(n^{3/2})$;…
The ''trace reconstruction'' problem asks, given an unknown binary string $x$ and a channel that repeatedly returns ''traces'' of $x$ with each bit randomly deleted with some probability $p$, how many traces are needed to recover $x$? There…
Genome rearrangements are events in which large blocks of DNA exchange pieces during evolution. The analysis of such events is a tool for understanding evolutionary genomics, based on finding the minimum number of rearrangements to…
An (n,d)-permutation code is a subset C of Sym(n) such that the Hamming distance d_H between any two distinct elements of C is at least equal to d. In this paper, we use the characterisation of the isometry group of the metric space…
We consider the problem of reconstructing compositions of an integer from their subcompositions, which was raised by Raykova (albeit disguised as a question about layered permutations). We show that every composition w of n\ge 3k+1 can be…
We introduce twisted permutation codes, which are frequency permutation arrays analogous to repetition permutation codes, namely, codes obtained from the repetition construction applied to a permutation code. In particular, we show that a…
We introduce the following natural generalization of trace reconstruction, parameterized by a deletion probability $\delta \in (0,1)$ and length $n$: There is a length $n$ string of probabilities, $S=p_1,\ldots,p_n,$ and each "trace" is…
In this article, we study the problem of finding the longest common separable pattern between several permutations. We give a polynomial-time algorithm when the number of input permutations is fixed and show that the problem is NP-hard for…
A graph is reconstructible if it is determined up to isomorphism by the multiset of its proper induced subgraphs. The reconstruction conjecture postulates that every graph of order at least 3 is reconstructible. We show that interval graphs…
We consider the problem of upper bounding the number of circular transpositions needed to sort a permutation. It is well known that any permutation can be sorted using at most $n(n-1)/2$ adjacent transpositions. We show that, if we allow…
A superpermutation is a sequence that contains every permutation of $n$ distinct symbols as a contiguous substring. For instance, a valid example for three symbols is a sequence that contains all six permutations. This paper introduces a…
Computing the reversal distances of signed permutations is an important topic in Bioinformatics. Recently, a new lower bound for the reversal distance was obtained via the plane permutation framework. This lower bound appears different from…
Permutation codes under different metrics have been extensively studied due to their potentials in various applications. Generalized Cayley metric is introduced to correct generalized transposition errors, including previously studied…