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We present new and improved fixed-parameter algorithms for computing maximum agreement forests (MAFs) of pairs of rooted binary phylogenetic trees. The size of such a forest for two trees corresponds to their subtree prune-and-regraft…

Populations and Evolution · Quantitative Biology 2015-03-19 Chris Whidden , Robert G. Beiko , Norbert Zeh

In this paper an interpolation-based decoding algorithm to decode Gabidulin codes, transmitted through a finely restricted channel, is proposed. The algorithm is able to decode rank errors beyond half the minimum distance by one unit. Also…

Information Theory · Computer Science 2021-10-12 Wrya K. Kadir

It is an important task to construct quantum maximum-distance-separable (MDS) codes with good parameters. In the present paper, we provide six new classes of q-ary quantum MDS codes by using generalized Reed-Solomon (GRS) codes and…

Information Theory · Computer Science 2019-12-06 Weijun Fang , Fang-Wei Fu

Dihedral codes, particular cases of quasi-cyclic codes, have a nice algebraic structure which allows to store them efficiently. In this paper, we investigate it and prove some lower bounds on their dimension and minimum distance, in analogy…

Information Theory · Computer Science 2020-03-26 Martino Borello , Abdelillah Jamous

Self-dual maximum distance separable codes (self-dual MDS codes) and self-dual near MDS codes are very important in coding theory and practice. Thus, it is interesting to construct self-dual MDS or self-dual near MDS codes. In this paper,…

Information Theory · Computer Science 2020-09-15 Daitao Huang , Qin Yue , Yongfeng Niu , Xia Li

The binary Hamming codes with parameters $[2^m-1, 2^m-1-m, 3]$ are perfect. Their extended codes have parameters $[2^m, 2^m-1-m, 4]$ and are distance-optimal. The first objective of this paper is to construct a class of binary linear codes…

Information Theory · Computer Science 2020-01-07 Ziling Heng , Cunsheng Ding , Weiqiong Wang

We study (symbol-pair) codes for symbol-pair read channels introduced recently by Cassuto and Blaum (2010). A Singleton-type bound on symbol-pair codes is established and infinite families of optimal symbol-pair codes are constructed. These…

Information Theory · Computer Science 2013-08-01 Yeow Meng Chee , Lijun Ji , Han Mao Kiah , Chengmin Wang , Jianxing Yin

This paper presents general bounds on the highest achievable rate for list-decodable insertion-deletion codes. In particular, we give novel outer and inner bounds for the highest achievable communication rate of any insertion-deletion code…

Information Theory · Computer Science 2022-08-10 Bernhard Haeupler , Amirbehshad Shahrasbi

Flag codes generalize constant dimension codes by considering sequences of nested subspaces with prescribed dimensions as codewords. A comprehensive construction, which unites cyclic orbit flag codes, yields two families of flag codes on…

Information Theory · Computer Science 2026-01-14 Junfeng Jia , Yanxun Chang

Flag codes are multishot network codes consisting of sequences of nested subspaces (flags) of a vector space $\mathbb{F}_q^n$, where $q$ is a prime power and $\mathbb{F}_q$, the finite field of size $q$. In this paper we study the…

Information Theory · Computer Science 2020-11-06 Clementa Alonso-González , Miguel Ángel Navarro-Pérez , Xaro Soler-Escrivà

We define a distance metric between partitions of a graph using machinery from optimal transport. Our metric is built from a linear assignment problem that matches partition components, with assignment cost proportional to transport…

Optimization and Control · Mathematics 2019-10-23 Tara Abrishami , Nestor Guillen , Parker Rule , Zachary Schutzman , Justin Solomon , Thomas Weighill , Si Wu

Choosing which properties of the data to use as input to multivariate decision algorithms -- a.k.a. feature selection -- is an important step in solving any problem with machine learning. While there is a clear trend towards training…

High Energy Physics - Phenomenology · Physics 2022-12-02 Ranit Das , Gregor Kasieczka , David Shih

Let $D=(V,E)$ be a strongly connected digraph and let $u ,v\in V(D)$. The maximum distance $md (u,v)$ is defined as\\ $md(u,v)$=max\{$\overrightarrow{d}(u,v), \overrightarrow{d}(v,u)$\} where $\overrightarrow{d}(u,v)$ denote the length of a…

Discrete Mathematics · Computer Science 2019-11-12 Prasanth G. Narasimha-Shenoi , Bijo S Anand , Mary Shalet T J

In this paper, we present a flexible and probabilistic framework for tracking topological features in time-varying scalar fields using merge trees and partial optimal transport. Merge trees are topological descriptors that record the…

Computational Geometry · Computer Science 2025-08-26 Mingzhe Li , Xinyuan Yan , Lin Yan , Tom Needham , Bei Wang

The minimum distance graph of a code has the codewords as vertices and edges exactly when the Hamming distance between two codewords equals the minimum distance of the code. A constructive proof for reconstructibility of an extended perfect…

Information Theory · Computer Science 2009-05-31 Ivan Yu. Mogilnykh , Patric R. J. Östergård , Olli Pottonen , Faina I. Solov'eva

Given a set of sequences, the distance between pairs of them helps us to find their similarity and derive structural relationship amongst them. For genomic sequences such measures make it possible to construct the evolution tree of…

Information Theory · Computer Science 2012-08-29 Sandeep Hosangadi

We study $q$-ary codes with distance defined by a partial order of the coordinates of the codewords. Maximum Distance Separable (MDS) codes in the poset metric have been studied in a number of earlier works. We consider codes that are close…

Information Theory · Computer Science 2010-05-03 Alexander Barg , Punarbasu Purkayastha

We will construct an MDS(= the most distance separable) code $C$ which admits a decomposition such that every factor is still MDS. An effective way of decoding will be also discussed.

Information Theory · Computer Science 2013-10-15 Ken-ichi Sugiyama

We define a notion of r-generalized column distances for the j-truncation of a convolutional code. Taking the limit as j tends to infinity allows us to define r-generalized column distances of a convolutional code. We establish some…

Information Theory · Computer Science 2022-12-26 Elisa Gorla , Flavio Salizzoni

Algebraic systems are constructed from which series of maximum distance separable (mds) codes are derived. The methods use unit and idempotent schemes.

Information Theory · Computer Science 2020-04-14 Barry Hurley , Ted Hurley