Related papers: Visualizing Co-Phylogenetic Reconciliations
Visualisation is an effective way to facilitate the analysis and understanding of multivariate data. In the context of multi-objective optimisation, comparing to quantitative performance metrics, visualisation is, in principle, able to…
Large tree structures are ubiquitous and real-world relational datasets often have information associated with nodes (e.g., labels or other attributes) and edges (e.g., weights or distances) that need to be communicated to the viewers. Yet,…
Phylogenetic networks are used to represent the evolutionary history of species. Recently, the new class of orchard networks was introduced, which were later shown to be interpretable as trees with additional horizontal arcs. This makes the…
Phylogenetics is the study of the evolutionary relationships between organisms. One of the main challenges in the field is to take biological data for a group of organisms and to infer an evolutionary tree, a graph that represents these…
Visualization design is often described as the process of solving a well-defined problem by navigating a design space. While existing visualization design models have provided valuable structure and guidance, they tend to foreground…
The evolutionary relationships between species are typically represented in the biological literature by rooted phylogenetic trees. However, a tree fails to capture ancestral reticulate processes, such as the formation of hybrid species or…
Data summarization aims at utilizing a small-scale summary to represent massive datasets as a whole, which is useful for visualization and information sipped generation. However, most existing studies of hierarchical summarization only work…
The differences between images belonging to fine-grained categories are often subtle and highly localized, and existing explainability techniques for deep learning models are often too diffuse to provide useful and interpretable…
Many biological and physical systems exhibit behaviour at multiple spatial, temporal or population scales. Multiscale processes provide challenges when they are to be simulated using numerical techniques. While coarser methods such as…
This paper proposes graphical representations of data and rationale provenance in workflows that convert both category labels and associated numeric data between distinct but semantically related taxonomies. We motivate the graphical…
Rooted phylogenetic networks are often used to represent conflicting phylogenetic signals. Given a set of clusters, a network is said to represent these clusters in the "softwired" sense if, for each cluster in the input set, at least one…
Hybrid visualizations mix different metaphors in a single layout of a network. In particular, the popular NodeTrix model, introduced by Henry, Fekete, and McGuffin in 2007, combines node-link diagrams and matrix-based representations to…
A permutation may be represented by a collection of paths in the plane. We consider a natural class of such representations, which we call tangles, in which the paths consist of straight segments at 45 degree angles, and the permutation is…
Our goal is to visualize an additional data dimension of a tree with multifaceted data through superimposition on vertical strips, which we call columns. Specifically, we extend upward drawings of unordered rooted trees where vertices have…
Reconciling gene trees with a species tree is a fundamental problem to understand the evolution of gene families. Many existing approaches reconcile each gene tree independently. However, it is well-known that the evolution of gene families…
In phylogenetics, evolution is traditionally represented in a tree-like manner. However, phylogenetic networks can be more appropriate for representing evolutionary events such as hybridization, horizontal gene transfer, and others. In…
Analyzing large, multivariate graphs is an important problem in many domains, yet such graphs are challenging to visualize. In this paper, we introduce a novel, scalable, tree+table multivariate graph visualization technique, which makes…
Hypergraph visualization has many applications in network data analysis. Recently, a polygon-based representation for hypergraphs has been proposed with demonstrated benefits. However, the polygon-based layout often suffers from excessive…
This paper proposes an automated method to detect, group and rectify arbitrarily-arranged coplanar repeated elements via energy minimization. The proposed energy functional combines several features that model how planes with coplanar…
Phylogenetics begins with reconstructing biological family trees from genetic data. Since Nature is not limited to tree-like histories, we use networks to organize our data, and have discovered new polytopes, metric spaces, and simplicial…