2 citations · 2 across the 8 of their papers we have counts for
8 papers
Maximizing All-Paths Phylogenetic Diversity: Parameterized Approaches for Networks
Mark Jones, Jannik Schestag
Phylogenetic Diversity (PD) is a fundamental measure of biodiversity, originally defined on phylogenetic trees and widely used in conservation biology. Phylogenetic trees are often…
Tree Containment Parameterized by Scanwidth
Leo van Iersel, Mark Jones, Mathias Weller
TREE CONTAINMENT is a central decision problem in mathematical phylogenetics, asking whether a given rooted phylogenetic tree is embeddable in ("displayed by") a given rooted phylo…
Average-Tree Phylogenetic Diversity Parameterized by Scanwidth and Invisibility
Leo van Iersel, Mark Jones, Jannik Schestag +2
We investigate parameterized algorithms for computing the average-tree phylogenetic diversity (APD) in rooted phylogenetic networks, studying the problem under different structural…
A Class of Unrooted Phylogenetic Networks Inspired by the Properties of Rooted Tree-Child Networks
Leo van Iersel, Mark Jones, Simone Linz +1
A directed phylogenetic network is tree-child if every non-leaf vertex has a child that is not a reticulation. As a class of directed phylogenetic networks, tree-child networks are…
Parameterized Algorithms for Diversity of Networks with Ecological Dependencies
Mark Jones, Jannik Schestag
For a phylogenetic tree, the phylogenetic diversity of a set A of taxa is the total weight of edges on paths to A. Finding small sets of maximal diversity is crucial for conservati…
Phylogenetic Network Diversity Parameterized by Reticulation Number and Beyond
Leo van Iersel, Mark Jones, Jannik Schestag +2
Network Phylogenetic Diversity (Network-PD) is a measure for the diversity of a set of species based on a rooted phylogenetic network (with branch lengths and inheritance probabili…
Maximizing Phylogenetic Diversity under Time Pressure: Planning with Extinctions Ahead
Mark Jones, Jannik Schestag
Phylogenetic Diversity (PD) is a measure of the overall biodiversity of a set of present-day species (taxa) within a phylogenetic tree. In Maximize Phylogenetic Diversity (MPD) one…
Consistency of orthology and paralogy constraints in the presence of gene transfers
Mark Jones, Manuel Lafond, Celine Scornavacca
Orthology and paralogy relations are often inferred by methods based on gene similarity, which usually yield a graph depicting the relationships between gene pairs. Such relation g…