Related papers: Time and Space Efficient Algorithms for RNA Foldin…
This paper considers fully dynamic graph algorithms with both faster worst case update time and sublinear space. The fully dynamic graph connectivity problem is the following: given a graph on a fixed set of n nodes, process an online…
Traditional orthogonal range problems allow queries over a static set of points, each with some value. Dynamic variants allow points to be added or removed, one at a time. To support more powerful updates, we introduce the Grid Range class…
For many shape analysis problems in computer vision and scientific imaging (e.g., computational anatomy, morphological cytometry), the ability to align two closed curves in the plane is crucial. In this paper, we concentrate on rigidly…
In this paper, we consider a generalized longest common subsequence problem, in which a constraining sequence of length $s$ must be included as a substring and the other constraining sequence of length $t$ must be excluded as a subsequence…
The \Problem{knapsack} problem is a fundamental problem in combinatorial optimization. It has been studied extensively from theoretical as well as practical perspectives as it is one of the most well-known NP-hard problems. The goal is to…
Replicability requires that algorithmic conclusions remain consistent when rerun on independently drawn data. A central structural question is composition: given $k$ problems each admitting a $\rho$-replicable algorithm with sample…
We present a randomized algorithm for dynamic graph connectivity. With failure probability less than $1/n^c$ (for any constant $c$ we choose), our solution has worst case running time $O(\log^3 n)$ per edge insertion, $O(\log^4 n)$ per edge…
The computer-aided folding of biomolecules, particularly RNAs, is one of the most difficult challenges in computational structural biology. RNA tetraloops are fundamental RNA motifs playing key roles in RNA folding and RNA-RNA and…
Interval scheduling is a basic problem in the theory of algorithms and a classical task in combinatorial optimization. We develop a set of techniques for partitioning and grouping jobs based on their starting and ending times, that enable…
Dynamic programming is widely used for exact computations based on tree decompositions of graphs. However, the space complexity is usually exponential in the treewidth. We study the problem of designing efficient dynamic programming…
In this paper, we obtain a number of new simple pseudo-polynomial time algorithms on the well-known knapsack problem, focusing on the running time dependency on the number of items $n$, the maximum item weight $w_\mathrm{max}$, and the…
We show that the three-dimensional layers-of-maxima problem can be solved in $o(n\log n)$ time in the word RAM model. Our algorithm runs in $O(n(\log \log n)^3)$ deterministic time or $O(n(\log\log n)^2)$ expected time and uses O(n) space.…
For a set $P$ of $n$ points in the plane and a value $r > 0$, the unit-disk range reporting problem is to construct a data structure so that given any query disk of radius $r$, all points of $P$ in the disk can be reported efficiently. We…
We consider the following problem: given three sets of real numbers, output a word-RAM data structure from which we can efficiently recover the sign of the sum of any triple of numbers, one in each set. This is similar to a previous work by…
Integer Linear Programming with $n$ binary variables and $m$ many $0/1$-constraints can be solved in time $2^{\tilde O(m^2)} \text{poly}(n)$ and it is open whether the dependence on $m$ is optimal. Several seemingly unrelated problems,…
In this paper we present new data structures for two extensively studied variants of the orthogonal range searching problem. First, we describe a data structure that supports two-dimensional orthogonal range minima queries in $O(n)$ space…
Folded Reed-Solomon (FRS) codes are a well-studied family of codes, known for achieving list decoding capacity. In this work, we give improved deterministic and randomized algorithms for list decoding FRS codes of rate $R$ up to radius…
We study the exact counting problem for all lattice rectangles contained in the square $[0,n)\times[0,n)$, including non-axis-parallel ones. Starting from the standard parametrization by a primitive direction $(u,v)$ and two side lengths,…
The {\it matrix-chain multiplication} problem is a classic problem that is widely taught to illustrate dynamic programming. The textbook solution runs in $\theta(n^3)$ time. However, there is a complex $O(n \log n)$-time method \cite{HU82},…
We improve the running times of $O(1)$-approximation algorithms for the set cover problem in geometric settings, specifically, covering points by disks in the plane, or covering points by halfspaces in three dimensions. In the unweighted…