Related papers: Minimum Segmentation for Pan-genomic Founder Recon…
A $(k+r,k,l)$ binary array code of length $k+r$, dimension $k$, and sub-packetization $l$ is composed of $l\times(k+r)$ matrices over $\mathbb{F}_2$, with every column of the matrix stored on a separate node in the distributed storage…
The sparse regression problem, also known as best subset selection problem, can be cast as follows: Given a set $S$ of $n$ points in $\mathbb{R}^d$, a point $y\in \mathbb{R}^d$, and an integer $2 \leq k \leq d$, find an affine combination…
A "genome structure" is a labeled directed graph with vertices of degree 1 or 2. A set of operations over such graphs is fixed, and each of the operations has a certain cost, a strictly positive number. The transformation problem consists…
This paper discusses the problem of covering and hitting a set of line segments $\cal L$ in ${\mathbb R}^2$ by a pair of axis-parallel squares such that the side length of the larger of the two squares is minimized. We also discuss the…
In intensity-modulated radiation therapy, optimal intensity distributions of incoming beams are decomposed into linear combinations of leaf openings of a multileaf collimator (segments). In order to avoid inefficient dose delivery, the…
This paper develops a new method for recovering m-sparse signals that is simultaneously uniform and quick. We present a reconstruction algorithm whose run time, O(m log^2(m) log^2(d)), is sublinear in the length d of the signal. The…
The starting point of our work is a decade-old open question concerning the subexponential parameterized complexity of \textsc{2-Layer Crossing Minimization}. In this problem, the input is an $n$-vertex graph $G$ whose vertices are…
Motif discovery is one of the most challenging problems in bioinformatics today. DNA sequence motifs are becoming increasingly important in analysis of gene regulation. Motifs are short, recurring patterns in DNA that have a biological…
We present algorithms that run in linear time on pointer machines for a collection of problems, each of which either directly or indirectly requires the evaluation of a function defined on paths in a tree. These problems previously had…
The sequence reconstruction problem was proposed by Levenshtein in 2001. In this model, a sequence from a code is transmitted over several channels, and the decoder receives the distinct outputs from each channel. The main problem is to…
The insertion-deletion channel takes as input a bit string ${\bf x}\in\{0,1\}^{n}$, and outputs a string where bits have been deleted and inserted independently at random. The trace reconstruction problem is to recover $\bf x$ from many…
We investigate the reconstruction of multivariate functions from samples using sparse recovery techniques. For Square Root Lasso, Orthogonal Matching Pursuit, and Compressive Sampling Matching Pursuit, we demonstrate both theoretically and…
Instance segmentation is the problem of detecting and delineating each distinct object of interest appearing in an image. Current instance segmentation approaches consist of ensembles of modules that are trained independently of each other,…
The sequence reconstruction problem, introduced by Levenshtein in 2001, considers a communication scenario where the sender transmits a codeword from some codebook and the receiver obtains multiple noisy reads of the codeword. Motivated by…
The distributed single-source shortest paths problem is one of the most fundamental and central problems in the message-passing distributed computing. Classical Bellman-Ford algorithm solves it in $O(n)$ time, where $n$ is the number of…
This paper initiates the study of I/O algorithms (minimizing cache misses) from the perspective of fine-grained complexity (conditional polynomial lower bounds). Specifically, we aim to answer why sparse graph problems are so hard, and why…
In the usual trace reconstruction problem, the goal is to exactly reconstruct an unknown string of length $n$ after it passes through a deletion channel many times independently, producing a set of traces (i.e., random subsequences of the…
The minimum conductance problem is an NP-hard graph partitioning problem. Apart from the search for bottlenecks in complex networks, the problem is very closely related to the popular area of network community detection. In this paper, we…
Given an integer array $A[1..n]$, the Range Minimum Query problem (RMQ) asks to preprocess $A$ into a data structure, supporting RMQ queries: given $a,b\in [1,n]$, return the index $i\in[a,b]$ that minimizes $A[i]$, i.e.,…
Motivation: High acceleration factors place a limit on MRI image reconstruction. This limit is extended to segmentation models when treating these as subsequent independent processes. Goal: Our goal is to produce segmentations directly from…