Clustering systems of phylogenetic networks

From modular decomposition trees to rooted median graphs

(2022) Carmen Bruckmann et al.   DISCRETE APPLIED MATHEMATICS

Classes of explicit phylogenetic networks and their biological and mathematical significance

(2022) Sungsik Kong et al.   JOURNAL OF MATHEMATICAL BIOLOGY

An algorithm for reconstructing level-2 phylogenetic networks from trinets

(2022) Leo van Iersel et al.   INFORMATION PROCESSING LETTERS

Trinets encode orchard phylogenetic networks

(2021) Charles Semple et al.   JOURNAL OF MATHEMATICAL BIOLOGY

Caterpillars on three and four leaves are sufficient to reconstruct binary normal networks

(2020) Simone Linz et al.   JOURNAL OF MATHEMATICAL BIOLOGY

Reconstructing Tree-Child Networks from Reticulate-Edge-Deleted Subnetworks

(2019) Yukihiro Murakami et al.   BULLETIN OF MATHEMATICAL BIOLOGY

Reconciling event-labeled gene trees with MUL-trees and species networks

(2019) Marc Hellmuth et al.   JOURNAL OF MATHEMATICAL BIOLOGY

Displaying trees across two phylogenetic networks

(2019) Janosch Döcker et al.   THEORETICAL COMPUTER SCIENCE

Phylogenetic networks that are their own fold-ups

(2019) K.T. Huber et al.   ADVANCES IN APPLIED MATHEMATICS

Nonbinary Tree-Based Phylogenetic Networks

(2018) Laura Jetten et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Tree-based networks: characterisations, metrics, and support trees

(2018) Joan Carles Pons et al.   JOURNAL OF MATHEMATICAL BIOLOGY

Reticulation-visible networks

(2016) Magnus Bordewich et al.   ADVANCES IN APPLIED MATHEMATICS

Beyond Representing Orthology Relations by Trees

(2016) K. T. Huber et al.   ALGORITHMICA

On Tree-Based Phylogenetic Networks

(2016) Louxin Zhang   JOURNAL OF COMPUTATIONAL BIOLOGY

Reconstructing Phylogenetic Level-1 Networks from Nondense Binet and Trinet Sets

(2015) Katharina T. Huber et al.   ALGORITHMICA

Determining phylogenetic networks from inter-taxa distances

(2015) Magnus Bordewich et al.   JOURNAL OF MATHEMATICAL BIOLOGY

Phylogenomics with paralogs

(2015) Marc Hellmuth et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Which Phylogenetic Networks are Merely Trees with Additional Arcs?

(2015) Andrew R. Francis et al.   SYSTEMATIC BIOLOGY

Trinets encode tree-child and level-2 phylogenetic networks

(2013) Leo van Iersel et al.   JOURNAL OF MATHEMATICAL BIOLOGY

Prepyramidal clustering and Robinsonian dissimilarities: one-to-one correspondences

(2013) Patrice Bertrand et al.   Wiley Interdisciplinary Reviews-Data Mining and Knowledge Discovery

Constructing Minimal Phylogenetic Networks from Softwired Clusters is Fixed Parameter Tractable

(2012) Steven Kelk et al.   ALGORITHMICA

Encoding and Constructing 1-Nested Phylogenetic Networks with Trinets

(2012) K. T. Huber et al.   ALGORITHMICA

QUARTETS AND UNROOTED PHYLOGENETIC NETWORKS

(2012) PHILIPPE GAMBETTE et al.   Journal of Bioinformatics and Computational Biology

On encodings of phylogenetic networks of bounded level

(2011) Philippe Gambette et al.   JOURNAL OF MATHEMATICAL BIOLOGY

A Survey of Combinatorial Methods for Phylogenetic Networks

(2010) Daniel H. Huson et al.   Genome Biology and Evolution

Regular Networks Can be Uniquely Constructed from Their Trees

(2010) S J Willson   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Properties of Normal Phylogenetic Networks

(2009) Stephen J. Willson   BULLETIN OF MATHEMATICAL BIOLOGY

Constructing Level-2 Phylogenetic Networks from Triplets

(2009) L. van Iersel et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Comparison of Tree-Child Phylogenetic Networks

(2009) G. Cardona et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Parsimonious cluster systems

(2009) François Brucker et al.   Advances in Data Analysis and Classification

Seeing the trees and their branches in the network is hard

(2008) Iyad A. Kanj et al.   THEORETICAL COMPUTER SCIENCE

Binary clustering

(2007) Jean-Pierre Barthélemy et al.   DISCRETE APPLIED MATHEMATICS

Systems of sets such that each set properly intersects at most one other set—Application to cluster analysis

(2007) P. Bertrand   DISCRETE APPLIED MATHEMATICS