Related papers: Model-based indicators for co-clustered environmen…
Accelerating global biodiversity loss has highlighted the role of complex relationships and shared patterns among species in determining their responses to environmental changes. The structure of an ecological community, represented by…
Cluster analysis of biological samples using gene expression measurements is a common task which aids the discovery of heterogeneous biological sub-populations having distinct mRNA profiles. Several model-based clustering algorithms have…
Dynamics of species' abundances in ecological communities are often described using models that only account for a few species. It is not clear when and why this would be possible, as most species form part of diverse ecological…
Ecosystems dynamics is often considered as driven by a coupling of species' resource consumption and its population size dynamics. Such resource-population dynamics is captured by MacArthur-type models. One biologically relevant feature…
A general framework for dealing with both linear regression and clustering problems is described. It includes Gaussian clusterwise linear regression analysis with random covariates and cluster analysis via Gaussian mixture models with…
This paper presents an evaluation of several approaches of plants species distribution modeling based on spatial, environmental and co-occurrences data using machine learning methods. In particular, we re-evaluate the environmental…
Matrix completion based collaborative filtering is considered scalable and effective for online service link prediction (e.g., movie recommendation) but does not meet the challenges of link prediction in ecological networks. A unique…
Empirical observations show that ecological communities can have a huge number of coexisting species, also with few or limited number of resources. These ecosystems are characterized by multiple type of interactions, in particular…
Empirical observations show that ecological communities can have a huge number of coexisting species, also with few or limited number of resources. These ecosystems are characterized by multiple type of interactions, in particular…
Quantitative predictions about the processes that promote species coexistence are a subject of active research in ecology. In particular, competitive interactions are known to shape and maintain ecological communities, and situations where…
Understanding covariate-varying interdependencies among features is of great interest in various applications. Motivated by microbiome studies where microbial abundances and interactions vary with environmental factors, we develop a…
Many application domains such as ecology or genomics have to deal with multivariate non Gaussian observations. A typical example is the joint observation of the respective abundances of a set of species in a series of sites, aiming to…
Ecosystem approach to fisheries requires a thorough understanding of fishing impacts on ecosystem status and processes as well as predictive tools such as ecosystem models to provide useful information for management. The credibility of…
Understanding the architectural subtleties of ecological networks, believed to confer them enhanced stability and robustness, is a subject of outmost relevance. Mutualistic interactions have been profusely studied and their corresponding…
The far-reaching consequences of ecological interactions in the dynamics of biological communities remain an intriguing subject. For decades, competition has been a cornerstone in ecological processes, but mounting evidence shows that…
Ecological systems are emergent features of ecological and adaptive dynamics of a community of interacting species. By natural selection through the abiotic environment and by co-adaptation within the community, species evolve, thereby…
We introduce a dependent Bayesian nonparametric model for the probabilistic modeling of membership of subgroups in a community based on partially replicated data. The focus here is on species-by-site data, i.e. community data where…
Occupancy models are frequently used by ecologists to quantify spatial variation in species distributions while accounting for observational biases in the collection of detection-nondetection data. However, the common assumption that a…
Until recently obtaining data on populations of networks was typically rare. However, with the advancement of automatic monitoring devices and the growing social and scientific interest in networks, such data has become more widely…
Recent work draws attention to community-community encounters ("coalescence") as likely an important factor shaping natural ecosystems. This work builds on MacArthur's classic model of competitive coexistence to investigate such…