Related papers: Edit Distance between Unlabeled Ordered Trees
We study the problem of estimating the edit distance between two $n$-character strings. While exact computation in the worst case is believed to require near-quadratic time, previous work showed that in certain regimes it is possible to…
Given two messages - as linear sequences of letters, it is immediate to determine whether one can be transformed into the other by simple substitution cipher of the letters. On the other hand, if the letters are carried as labels on nodes…
Higher dimensional permutations are tuples of d-1 permutations that can be identified with a point set in a d-dimensional grid. In N. Bonichon and P.-J. Morel, {\it J. Integer Sequences} 25 (2022), several conjectures regarding the…
The number of 123-avoiding permutation on $\{1,2,\ldots,n\}$ with a fixed leading terms is counted by the ballot numbers. The same holds for $132$-avoiding permutations. These results were proved by Miner and Pak using the…
We determine the structure of permutations avoiding the patterns 4213 and 2143. Each such permutation consists of the skew sum of a sequence of plane trees, together with an increasing sequence of points above and an increasing sequence of…
We initiate the study of sorting permutations using prefix block-interchanges, which exchange any prefix of a permutation with another non-intersecting interval. The goal is to transform a given permutation into the identity permutation…
A permutation graph is the intersection graph of a set of segments between two parallel lines. In other words, they are defined by a permutation $\pi$ on $n$ elements, such that $u$ and $v$ are adjacent if an only if $u<v$ but…
The number of inversion sequences avoiding two patterns $101$ and $102$ is known to be the same as the number of permutations avoiding three patterns $2341$, $2431$, and $3241$. This sequence also counts the number of Schr\"{o}der paths…
The mutational heterogeneity of tumours can be described with a tree representing the evolutionary history of the tumour. With noisy sequencing data there may be uncertainty in the inferred tree structure, while we may also wish to study…
The graph edit distance is used for comparing graphs in various domains. Due to its high computational complexity it is primarily approximated. Widely-used heuristics search for an optimal assignment of vertices based on the distance…
Merge trees are a common topological descriptor for data with a hierarchical component, such as terrains and scalar fields. The interleaving distance, in turn, is a common distance for comparing merge trees. However, the interleaving…
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…
A pattern $\alpha$ is a string of variables and terminal letters. We say that $\alpha$ matches a word $w$, consisting only of terminal letters, if $w$ can be obtained by replacing the variables of $\alpha$ by terminal words. The matching…
We study the bounded regions in a generic slice of the hyperplane arrangement in $\mathbb{R}^n$ consisting of the hyperplanes defined by $x_i$ and $x_i+x_j$. The bounded regions are in bijection with several classes of combinatorial…
In this paper, we give a polynomial (O(n^8)) algorithm for finding a longest common pattern between two permutations of size n given that one is separable. We also give an algorithm for general permutations whose complexity depends on the…
Edit distance with moves (EDM) is a string-to-string distance measure that includes substring moves in addition to ordinal editing operations to turn one string to the other. Although optimizing EDM is intractable, it has many applications…
The problem of approximate string matching is important in many different areas such as computational biology, text processing and pattern recognition. A great effort has been made to design efficient algorithms addressing several variants…
The number of the non-shared edges of two phylogenies is a basic measure of the dissimilarity between the phylogenies. The non-shared edges are also the building block for approximating a more sophisticated metric called the nearest…
Labeling schemes seek to assign a short label to each node in a network, so that a function on two nodes can be computed by examining their labels alone. For the particular case of trees, optimal bounds (up to low order terms) were recently…
The edit distance between two strings is defined as the smallest number of insertions, deletions, and substitutions that need to be made to transform one of the strings to another one. Approximating edit distance in subquadratic time is…