Related papers: Matching Subsequences in Trees
Algorithms to find optimal alignments among strings, or to find a parsimonious summary of a collection of strings, are well studied in a variety of contexts, addressing a wide range of interesting applications. In this paper, we consider…
Temporal graphs are a special class of graphs for which a temporal component is added to edges, that is, each edge possesses a set of times at which it is available and can be traversed. Many classical problems on graphs can be translated…
Evaluation of regular path queries (RPQs) is a central problem in graph databases. We investigate the corresponding enumeration problem, that is, given a graph and an RPQ, enumerate all paths in the graph that match the RPQ. We consider…
Phylogenetic networks are a generalization of phylogenetic trees to leaf-labeled directed acyclic graphs that represent ancestral relationships between species whose past includes non-tree-like events such as hybridization and horizontal…
Let G=(V,E)(|V|=n and |E|=m) be an undirected graph with positive edge weights. Let P_{G}(s, t) be a shortest s-t path in G. Let l be the number of edges in P_{G}(s, t). The \emph{Edge Replacement Path} problem is to compute a shortest s-t…
Decision trees are well-known due to their ease of interpretability. To improve accuracy, we need to grow deep trees or ensembles of trees. These are hard to interpret, offsetting their original benefits. Shapley values have recently become…
One of the important features of an interconnection network is its ability to efficiently simulate programs or parallel algorithms written for other architectures. Such a simulation problem can be mathematically formulated as a graph…
THIS IS A CORRECTED VERSION INCLUDING AN APPENDED CORRIGENDUM. Best match graphs arise naturally as the first processing intermediate in algorithms for orthology detection. Let $T$ be a phylogenetic (gene) tree $T$ and $\sigma$ an…
Tree-based phylogenetic networks, which may be roughly defined as leaf-labeled networks built by adding arcs only between the original tree edges, have elegant properties for modeling evolutionary histories. We answer an open question of…
A split-by-edges tree of a graph G on n vertices is a binary tree T where the root = V(G), every leaf is an independent set in G, and for every other node N in T with children L and R there is a pair of vertices {u, v} in N such that L = N…
Merge trees are fundamental structures in topological data analysis. Interleaving distance is a widely accepted metric for comparing merge trees, with applications in visualization and scientific computing. While a greedy algorithm exists…
Finding the shortest-path distance between two arbitrary vertices is an important problem in road networks. Due to real-time traffic conditions, road networks undergo dynamic changes all the time. Current state-of-the-art methods…
This paper presents the novel `uniqueness tree' algorithm, as one possible method for determining whether two finite, undirected graphs are isomorphic. We prove that the algorithm has polynomial time complexity in the worst case, and that…
We consider special cases of the two tree degree sequences problem. We show that if two tree degree sequences do not have common leaves then they always have edge-disjoint caterpillar realizations. By using a probabilistic method, we prove…
Optimal motion planning involves obstacles avoidance where path planning is the key to success in optimal motion planning. Due to the computational demands, most of the path planning algorithms can not be employed for real-time based…
In the \textsc{Waypoint Routing Problem} one is given an undirected capacitated and weighted graph $G$, a source-destination pair $s,t\in V(G)$ and a set $W\subseteq V(G)$, of \emph{waypoints}. The task is to find a walk which starts at the…
In the Fully Leafed Induced Subtrees, one is given a graph $G$ and two integers $a$ and $b$ and the question is to find an induced subtree of $G$ with $a$ vertices and at least $b$ leaves. This problem is known to be NP-complete even when…
Considering a graph with unknown weights, can we find the shortest path for a pair of nodes if we know the minimal Steiner trees associated with some subset of nodes? That is, with respect to a fixed latent decision-making system (e.g., a…
The rooted tree is an important data structure, and the subtree size, height, and depth are naturally defined attributes of every node. We consider the problem of the existence of a k-ary tree given a list of attribute sequences. We give…
This paper presents a detailed comparison of a recently proposed algorithm for optimizing decision trees, tree alternating optimization (TAO), with other popular, established algorithms. We compare their performance on a number of…