Related papers: A seed-diffusion model for tropical tree diversity…
The seasonal production of fruit and seeds resembles opening a feeding station, such as a restaurant agents/ customers will arrive at a certain rate and pick fruit (get served) at a certain rate following some appropriate processes.…
The ongoing explosion of genome sequence data is transforming how we reconstruct and understand the histories of biological systems. Across biological scales, from individual cells to populations and species, trees-based models provide a…
Species distribution models (SDMs) are widely used to assess the effects of environmental factors on species distributions. However, classical SDMs ignore inter-species dependencies. Multivariate SDMs (MSDMs), especially those based on…
We consider a neutral dynamical model of biological diversity, where individuals live and reproduce independently. They have i.i.d. lifetime durations (which are not necessarily exponentially distributed) and give birth (singly) at constant…
We study an individual-based model in which two spatially-distributed species, characterized by different diffusivities, compete for resources. We consider three different ecological settings. In the first, diffusing faster has a cost in…
We used a metacommunity of 49 discrete communities of aquatic invertebrates to analyze the dynamical relationship between community and metacommunity species distributions as a test of the neutral theory of biodiversity and biogeography. At…
The transmission dynamics of an epidemic are rarely homogeneous. Super-spreading events and super-spreading individuals are two types of heterogeneous transmissibility. Inference of super-spreading is commonly carried out on secondary case…
The large variation in seed mass among species inspired a vast array of theoretical and empirical research attempting to explain this variation. So far, seed mass variation was investigated by two classes of studies: one class focuses on…
There has been a considerable effort to understand and quantify the spatial distribution of species across different ecosystems. Relative species abundance (RSA), beta diversity and species area relationship (SAR) are among the most used…
A Monte-Carlo algorithm for discrete statistical models that combines the full power of the Belief Propagation algorithm with the advantages of a detailed-balanced heat bath approach is presented. A sub-tree inside the factor graph is first…
We seek models for the genotype evolution of agricultural animals, animals involved in primary production processes. Classical models for genotype evolution have tended to be very simple in order that analytic methods may be employed in…
McGill's theory of biodiversity is based upon three axioms: individuals of the same species cluster together, many rare species co-exist with a few common ones and individuals of different species grow independently of each other. Over the…
Tree-grass coexistence in savanna ecosystems depends strongly on environmental disturbances out of which crucial is fire. Most modeling attempts in the literature lack stochastic approach to fire occurrences which is essential to reflect…
New automated and high-throughput methods allow the manipulation and selection of numerous bacterial populations. In this manuscript we are interested in the neutral diversity patterns that emerge from such a setup in which many bacterial…
Several theoretical frameworks have been proposed to explain observed biodiversity patterns, ranging from the classical niche-based theories, mainly employing a continuous formalism, to neutral theories, based on statistical mechanics of…
Plant survival is a key factor in forest dynamics and survival probabilities often vary across life stages. Studies specifically aimed at assessing tree survival are unusual and so data initially designed for other purposes often need to be…
In this work we develop and demonstrate a probabilistic generative model for phytoplankton communities. The proposed model takes counts of a set of phytoplankton taxa in a timeseries as its training data, and models communities by learning…
The spread of infectious disease in a human community or the proliferation of fake news on social media can be modeled as a randomly growing tree-shaped graph. The history of the random growth process is often unobserved but contains…
A particular sequence of patterns, "$\text{gaps} \to \text{labyrinth} \to \text{spots}$," occurs with decreasing precipitation in previously reported numerical simulations of PDE dryland vegetation models. These observations have led to the…
The distributions of species lifetimes and species in space are related, since species with good local survival chances have more time to colonize new habitats and species inhabiting large areas have higher chances to survive local…