Related papers: 'coexist': an R package for performing species coe…
The advent of miniaturized biologging devices has provided ecologists with unprecedented opportunities to record animal movement across scales, and led to the collection of ever-increasing quantities of tracking data. In parallel,…
How large ecosystems can create and maintain the remarkable biodiversity we see in nature is probably one of the biggest open questions in science, attracting attention from different fields, from Theoretical Ecology to Mathematics and…
Ecological systems comprise an astonishing diversity of species that cooperate or compete with each other forming complex mutual dependencies. The minimum requirements to maintain a large species diversity on long time scales are in general…
This technical report accompanies a research article that empirically studies the problems related to inter-repository package dependencies in the R ecosystem of statistical computing, with a focus on R packages hosted on CRAN and GitHub.…
Mapping habitat suitability, based on factors like host availability and environmental suitability, is a common approach to determining which locations are important for the spread of a species. Mapping habitat connectivity takes geographic…
Many natural ecosystems harbor large numbers of coexisting species competing for far fewer distinct resources, in apparent defiance of the competitive exclusion principle. Various mechanisms have been proposed to explain this apparent…
Ecologists and evolutionary biologists are relying on an increasingly sophisticated set of statistical tools to describe complex natural systems. One such tool that has gained increasing traction in the life sciences is structural equation…
In this paper, we present a new R package COREclust dedicated to the detection of representative variables in high dimensional spaces with a potentially limited number of observations. Variable sets detection is based on an original graph…
The fitting or parameter estimation of complex ecological models is a challenging optimisation task, with a notable lack of tools for fitting complex, long runtime or stochastic models. calibrar is an R package that is dedicated to the…
One of the most powerful features of R is its infrastructure for contributed code. The built-in package manager and complementary repositories provide a great system for development and exchange of code, and have played an important role in…
Understanding how species persist under interacting stressors is a central challenge in ecology. We develop a spatially explicit reaction-diffusion framework to investigate competing species in landscapes shaped by climate variability,…
Many ecological and spatial processes are complex in nature and are not accurately modeled by linear models. Regression trees promise to handle the high-order interactions that are present in ecological and spatial datasets, but fail to…
Nearly every popular programming language comes with one or more package managers. The software packages distributed by such package managers form large software ecosystems. These packaging ecosystems contain a large number of package…
A software package has been developed to bridge the R analysis model with the conceptual analysis environment typical of radiation physics experiments. The new package has been used in the context of a project for the validation of…
A fundamental problem in ecology is to understand how competition shapes biodiversity and species coexistence. Historically, one important approach for addressing this question has been to analyze consumer resource models using geometric…
Crossover designs are widely applied in medicine, agriculture, and other biological sciences, yet their analysis remains challenging due to longitudinal observations within each unit and the presence of carry-over effects. Despite their…
The coexistence between different informational molecules has been the preferred mode to circumvent the limitation posed by imperfect replication on the amount of information stored by each of these molecules. Here we reexamine a classic…
BPEC is an R package for Bayesian Phylogeographic and Ecological Clustering which allows geographical, environmental and phenotypic measurements to be combined with DNA sequences in order to reveal clustered structure resulting from…
This article describes SimEngine, an open-source R package for structuring, maintaining, running, and debugging statistical simulations on both local and cluster-based computing environments. Several R packages exist for structuring…
Science depends on collaboration, result reproduction, and the development of supporting software tools. Each of these requires careful management of software versions. We present a unified model for installing, managing, and publishing…