Related papers: Size-constrained Weighted Ancestors with Applicati…
Given two rooted, ordered, and labeled trees $P$ and $T$ the tree inclusion problem is to determine if $P$ can be obtained from $T$ by deleting nodes in $T$. This problem has recently been recognized as an important query primitive in XML…
We consider a sliding window $W$ over a stream of characters from some alphabet of constant size. The user wants to perform deterministic substring matching on the current sliding window content and obtain positions of the matches. We…
We consider the tree consensus problem, an important problem in bioinformatics. Given a rooted tree $t$ and another tree $T$, one would like to incorporate compatible information from $T$ to $t$. This problem is a subproblem in the tree…
We consider problems in which we are given a rooted tree as input, and must find a subtree with the same root, optimizing some objective function of the nodes in the subtree. When this function is the sum of constant node weights, the…
Constrained counting is a fundamental problem in artificial intelligence. A promising new algebraic approach to constrained counting makes use of tensor networks, following a reduction from constrained counting to the problem of…
The weighted low-rank approximation problem is a fundamental numerical linear algebra problem and has many applications in machine learning. Given a $n \times n$ weight matrix $W$ and a $n \times n$ matrix $A$, the goal is to find two…
The directed acyclic word graph (DAWG) of a string $y$ of length $n$ is the smallest (partial) DFA which recognizes all suffixes of $y$ with only $O(n)$ nodes and edges. In this paper, we show how to construct the DAWG for the input string…
Consider an input text string T[1,N] drawn from an unbounded alphabet. We study partial computation in suffix-based problems for Data Compression and Text Indexing such as (I) retrieve any segment of K<=N consecutive symbols from the…
The suffix tree is arguably the most fundamental data structure on strings: introduced by Weiner (SWAT 1973) and McCreight (JACM 1976), it allows solving a myriad of computational problems on strings in linear time. Motivated by its large…
We seek to perform efficient queries for the predecessor among $n$ values stored in $k$ sorted arrays. Evading the $\Omega(n \log k)$ lower bound from merging $k$ arrays, we support predecessor queries in $O(\log n)$ time after $O(n…
It is widely assumed that $O(m+\lg \sigma)$ is the best one can do for finding a pattern of length $m$ in a compacted trie storing strings over an alphabet of size $\sigma$, if one insists on linear-size data structures and deterministic…
Attempting to recognize a tree inside a phylogenetic network is a fundamental undertaking in evolutionary analysis. In the last few years, therefore, tree-based phylogenetic networks, which are defined by a spanning tree called a…
Tree kernels have been proposed to be used in many areas as the automatic learning of natural language applications. In this paper, we propose a new linear time algorithm based on the concept of weighted tree automata for SubTree kernel…
We revisit the classic border tree data structure [Gu, Farach, Beigel, SODA 1994] that answers the following prefix-suffix queries on a string $T$ of length $n$ over an integer alphabet $\Sigma=[0,\sigma)$: for any $i,j \in [0,n)$ return…
We revisit weight-balanced trees, also known as trees of bounded balance. This class of binary search trees was invented by Nievergelt and Reingold in 1972. Such trees are obtained by assigning a weight to each node and requesting that the…
We revisit the \textsc{$k$-Secluded Tree} problem. Given a vertex-weighted undirected graph $G$, its objective is to find a maximum-weight induced subtree $T$ whose open neighborhood has size at most $k$. We present a fixed-parameter…
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…
Weighted variants of triangle detection are an important object of study because of their prominence in fine-grained complexity. We revisit the Node-Weighted Triangle problem, where the goal is to decide if a vertex-weighted graph contains…
We show that the compressed suffix array and the compressed suffix tree of a string $T$ can be built in $O(n)$ deterministic time using $O(n\log\sigma)$ bits of space, where $n$ is the string length and $\sigma$ is the alphabet size.…
``Algorithms with predictions'', or ``learning-augmented algorithms'', has proved to be an extremely useful paradigm for combining machine learning with traditional algorithms. One of the textbook settings for this is searching a sorted…