Related papers: A Multivariate Complexity Analysis of the Generali…
Net-trees are a general purpose data structure for metric data that have been used to solve a wide range of algorithmic problems. We give a simple randomized algorithm to construct net-trees on doubling metrics using $O(n\log n)$ time in…
Phylogenetic networks generalize phylogenetic trees by allowing the modelization of events of reticulate evolution. Among the different kinds of phylogenetic networks that have been proposed in the literature, the subclass of binary…
Here we show that deciding whether two rooted binary phylogenetic trees on the same set of taxa permit a cherry-picking sequence, a special type of elimination order on the taxa, is NP-complete. This improves on an earlier result which…
The hierarchical and recursive expressive capability of rooted trees is applicable to represent statistical models in various areas, such as data compression, image processing, and machine learning. On the other hand, such hierarchical…
We consider the problem of structure recovery in a graphical model of a tree where some variables are latent. Specifically, we focus on the Gaussian case, which can be reformulated as a well-studied problem: recovering a semi-labeled tree…
We argue that parameterized complexity is a useful tool with which to study global constraints. In particular, we show that many global constraints which are intractable to propagate completely have natural parameters which make them…
Addressing a complex real-world optimization problem is a challenging task. The chance-constrained knapsack problem with correlated uniform weights plays an important role in the case where dependent stochastic components are considered. We…
We consider the problem of drawing multiple gene trees inside a single species tree in order to visualize multispecies coalescent trees. Specifically, the drawing of the species tree fills a rectangle in which each of its edges is…
A polynomial complexity algorithm is designed which tests whether a point belongs to a given tropical linear variety.
Genetic and comparative genomic studies indicate that extant genomes are more properly considered to be a fusion product of random mutations over generations and genomic material transfers between individuals of different lineages. This has…
Evolutionary relationships between species are usually inferred through phylogenetic analysis, which provides phylogenetic trees computed from allelic profiles built by sequencing specific regions of the sequences and abstracting them to…
Population structure can be modelled by evolutionary graphs, which can have a substantial, but very subtle influence on the fate of the arising mutants. Individuals are located on the nodes of these graphs, competing with each other to…
Evolution occurs in populations of reproducing individuals. The structure of a biological population affects which traits evolve. Understanding evolutionary game dynamics in structured populations is difficult. Precise results have been…
Generalized Noether's theory is a useful method for researching the modified gravity theories about the conserved quantities and symmetries. A generally Gauss-Bonnet gravity $f(R,\mathcal{G})$ theory was proposed as an alternative gravity…
In this paper, we provide an $O(n \mathrm{polylog} n)$ bound on the expected complexity of the randomly weighted Voronoi diagram of a set of $n$ sites in the plane, where the sites can be either points, interior-disjoint convex sets, or…
Evolutionary algorithms (EAs), a large class of general purpose optimization algorithms inspired from the natural phenomena, are widely used in various industrial optimizations and often show excellent performance. This paper presents an…
In a complex system, the individual components are neither so tightly coupled or correlated that they can all be treated as a single unit, nor so uncorrelated that they can be approximated as independent entities. Instead, patterns of…
In complex systems, decision makers often have to consider qualitatively different risks when choosing between options. Do their strategies of integrating these risks depend on the framing of problem contents? In the present study,…
We present a general setting for structure-sequence comparison in a large class of RNA structures that unifies and generalizes a number of recent works on specific families on structures. Our approach is based on tree decomposition of…
When the information about uncertainty cannot be quantified in a simple, probabilistic way, the topic of possibilistic decision theory is often a natural one to consider. The development of possibilistic decision theory has lead to a series…