Related papers: On Computing Average Common Substring Over Run Len…
Deep learning dominates speech processing but relies on massive datasets, global backpropagation-guided weight updates, and produces entangled representations. Assembly Calculus (AC), which models sparse neuronal assemblies via Hebbian…
Approximating the length of the longest increasing sequence (LIS) of an array is a well-studied problem. We study this problem in the data stream model, where the algorithm is allowed to make a single left-to-right pass through the array…
Compressive sensing (CS) combines data acquisition with compression coding to reduce the number of measurements required to reconstruct a sparse signal. In optics, this usually takes the form of projecting the field onto sequences of random…
A string is closed if it has length 1 or has a nonempty border without internal occurrences. In this paper we introduce the definition of a \emph{maximal closed substring} (MCS), which is an occurrence of a closed substring that cannot be…
The classic string indexing problem is to preprocess a string S into a compact data structure that supports efficient pattern matching queries. Typical queries include existential queries (decide if the pattern occurs in S), reporting…
This paper introduces a new (dis)similarity measure for 2D arrays, extending the Average Common Submatrix measure. This is accomplished by: (i) considering the frequency of matching patterns, (ii) restricting the pattern matching to a…
We consider the classic problem of computing the Longest Common Subsequence (LCS) of two strings of length $n$. While a simple quadratic algorithm has been known for the problem for more than 40 years, no faster algorithm has been found…
Searching for all occurrences of a pattern in a text is a fundamental problem in computer science with applications in many other fields, like natural language processing, information retrieval and computational biology. Sampled string…
This paper is intended to be a brief and accessible introduction to the range variant of asymmetric numeral systems (ANS), a system for lossless compression of sequences which can be used as a drop in replacement for arithmetic coding (AC).…
Repeat finding in strings has important applications in subfields such as computational biology. Surprisingly, all prior work on repeat finding did not consider the constraint on the locality of repeats. In this paper, we propose and study…
For a string $S$, a palindromic substring $S[i..j]$ is said to be a \emph{shortest unique palindromic substring} ($\mathit{SUPS}$) for an interval $[s, t]$ in $S$, if $S[i..j]$ occurs exactly once in $S$, the interval $[i, j]$ contains $[s,…
Kernel methods are powerful tools in machine learning. They have to be computationally efficient. In this paper, we present a novel Geometric-based approach to compute efficiently the string subsequence kernel (SSK). Our main idea is that…
Sparse regression codes with approximate message passing (AMP) decoding have gained much attention in recent times. The concepts underlying this coding scheme extend to unsourced access with coded compressed sensing (CCS), as first pointed…
This paper introduces the SEQ BIN meta-constraint with a polytime algorithm achieving general- ized arc-consistency according to some properties. SEQ BIN can be used for encoding counting con- straints such as CHANGE, SMOOTH or INCREAS- ING…
In this work, we consider a variant of the classical Longest Common Subsequence problem called Doubly-Constrained Longest Common Subsequence (DC-LCS). Given two strings s1 and s2 over an alphabet A, a set C_s of strings, and a function Co…
We consider the Abelian longest common factor problem in two scenarios: when input strings are uncompressed and are of size $n$, and when the input strings are run-length encoded and their compressed representations have size at most $m$.…
We revisit the problem of longest common property preserving substring queries introduced by~Ayad et al. (SPIRE 2018, arXiv 2018). We consider a generalized and unified on-line setting, where we are given a set $X$ of $k$ strings of total…
This paper introduces a new family of reconstruction codes which is motivated by applications in DNA data storage and sequencing. In such applications, DNA strands are sequenced by reading some subset of their substrings. While previous…
DBSCAN is a popular density-based clustering algorithm that has many different applications in practice. However, the running time of DBSCAN in high-dimensional space or general metric space ({\em e.g.,} clustering a set of texts by using…
Xampling generalizes compressed sensing (CS) to reduced-rate sampling of analog signals. A unified framework is introduced for low rate sampling and processing of signals lying in a union of subspaces. Xampling consists of two main blocks:…