Related papers: Arc-preserving subsequences of arc-annotated seque…
The 2-LCPS problem, first introduced by Chowdhury et al. [Fundam. Inform., 129(4):329-340, 2014], asks one to compute (the length of) a longest palindromic common subsequence between two given strings $A$ and $B$. We show that the 2-LCPS…
This paper reduces discontinuous parsing to sequence labeling. It first shows that existing reductions for constituent parsing as labeling do not support discontinuities. Second, it fills this gap and proposes to encode tree discontinuities…
We prove decidability results on the existence of constant subsequences of uniformly recurrent morphic sequences along arithmetic progressions. We use spectral properties of the subshifts they generate to give a first algorithm deciding…
Let $S_n$ denote the set of permutations of $[n]$ and let $\sigma=\sigma_1\cdots\sigma_n\in S_n$. For a subsequence $\{\sigma_{i_j}\}_{j=1}^k$ of $\{\sigma_i\}_{i=1}^n$ of length $k\ge2$, construct the ``up/down'' sequence $V_1\cdots…
Pseudo-arclength continuation is a well-established method for generating a numerical curve approximating the solution of an underdetermined system of nonlinear equations. It is an inherently sequential predictor-corrector method in which…
The paper describes an algorithm to compute a consensus sequence from a set of DNA sequences of approximatively identical length generated by 3rd sequencing generation technologies. Its purpose targets DNA storage and is guided by specific…
Recently Kubica et al. (Inf. Process. Let., 2013) and Kim et al. (submitted to Theor. Comp. Sci.) introduced order-preserving pattern matching. In this problem we are looking for consecutive substrings of the text that have the same "shape"…
We prove that deciding whether a given input word contains as subsequence every possible permutation of integers $\{1,2,\ldots,n\}$ is coNP-complete. The coNP-completeness holds even when given the guarantee that the input word contains as…
We are interested in the statistics of the length of the longest increasing subsequence of 2-rowed lexicographically sorted arrays chosen according to distinct families of distributions D = (D_n)_n, and when n goes to infinity. This…
The equidistant subsequence pattern matching problem is considered. Given a pattern string $P$ and a text string $T$, we say that $P$ is an \emph{equidistant subsequence} of $T$ if $P$ is a subsequence of the text such that consecutive…
An endhered (end-adhered) pattern is a subset of arcs in matchings, such that the corresponding starting points are consecutive and the same holds for the ending points. Such patterns are in one-to-one correspondence with the permutations.…
This paper addresses the Variable Gapped Longest Common Subsequence (VGLCS) problem, a generalization of the classical LCS problem involving flexible gap constraints between consecutive solutions' characters. The problem arises in molecular…
In the preprocessing framework for dealing with uncertain data, one is given a set of regions that one is allowed to preprocess to create some auxiliary structure such that when a realization of these regions is given, consisting of one…
We consider sparse superposition codes (SPARCs) over complex AWGN channels. Such codes can be efficiently decoded by an approximate message passing (AMP) decoder, whose performance can be predicted via so-called state evolution in the…
Sequence theories are an extension of theories of strings with an infinite alphabet of letters, together with a corresponding alphabet theory (e.g. linear integer arithmetic). Sequences are natural abstractions of extendable arrays, which…
We consider the problem of identifying tandem scattered subsequences within a string. Our algorithm identifies a longest subsequence which occurs twice without overlap in a string. This algorithm is based on the Hunt-Szymanski algorithm,…
Given $m$ documents of total length $n$, we consider the problem of finding a longest string common to at least $d \geq 2$ of the documents. This problem is known as the \emph{longest common substring (LCS) problem} and has a classic $O(n)$…
Two strings of the same length are said to Cartesian-tree match (CT-match) if their Cartesian-trees are isomorphic [Park et al., TCS 2020]. Cartesian-tree matching is a natural model that allows for capturing similarities of numerical…
Convolutional Recurrent Neural Networks (CRNNs) excel at scene text recognition. Unfortunately, they are likely to suffer from vanishing/exploding gradient problems when processing long text images, which are commonly found in scanned…
The primary structure of a ribonucleic acid (RNA) molecule can be represented as a sequence of nucleotides (bases) over the alphabet {A, C, G, U}. The secondary or tertiary structure of an RNA is a set of base pairs which form bonds between…