Untangling direct species associations from indirect mediator species effects with graphical models

A pathway for multivariate analysis of ecological communities using copulas

(2019) Marti J. Anderson et al.   Ecology and Evolution

Unravelling changing interspecific interactions across environmental gradients using Markov random fields

(2018) Nicholas J. Clark et al.   ECOLOGY

A general algorithm for covariance modeling of discrete data

(2018) Gordana C. Popovic et al.   JOURNAL OF MULTIVARIATE ANALYSIS

Biotic interactions in species distribution modelling: 10 questions to guide interpretation and avoid false conclusions

(2018) Carsten F. Dormann et al.   GLOBAL ECOLOGY AND BIOGEOGRAPHY

Variational Approximations for Generalized Linear Latent Variable Models

(2017) Francis K. C. Hui et al.   JOURNAL OF COMPUTATIONAL AND GRAPHICAL STATISTICS

The PIT-trap—A “model-free” bootstrap procedure for inference about regression models with discrete, multivariate responses

(2017) David I. Warton et al.   PLoS One

A network approach for inferring species associations from co-occurrence data

(2016) Naia Morueta-Holme et al.   ECOGRAPHY

Inferring species interactions from co-occurrence data with Markov networks

(2016) David J. Harris   ECOLOGY

Three points to consider when choosing a LM or GLM test for count data

(2016) David I. Warton et al.   Methods in Ecology and Evolution

Inferring biotic interactions from proxies

(2015) Ignacio Morales-Castilla et al.   TRENDS IN ECOLOGY & EVOLUTION

So Many Variables: Joint Modeling in Community Ecology

(2015) David I. Warton et al.   TRENDS IN ECOLOGY & EVOLUTION

Generating realistic assemblages with a joint species distribution model

(2015) David J. Harris   Methods in Ecology and Evolution

Understanding co-occurrence by modelling species simultaneously with a Joint Species Distribution Model (JSDM)

(2014) Laura J. Pollock et al.   Methods in Ecology and Evolution

To mix or not to mix: comparing the predictive performance of mixture models vs. separate species distribution models

(2013) Francis K. C. Hui et al.   ECOLOGY

Global shifts towards positive species interactions with increasing environmental stress

(2013) Qiang He et al.   ECOLOGY LETTERS

Network-Scale Traffic Modeling and Forecasting with Graphical Lasso and Neural Networks

(2012) Shiliang Sun et al.   JOURNAL OF TRANSPORTATION ENGINEERING

New Zealand's forest and shrubland communities: a quantitative classification based on a nationally representative plot network

(2011) Susan K. Wiser et al.   APPLIED VEGETATION SCIENCE

Learning brain connectivity of Alzheimer's disease by sparse inverse covariance estimation

(2010) Shuai Huang et al.   NEUROIMAGE

Do not log-transform count data

(2010) Robert B. O’Hara et al.   Methods in Ecology and Evolution

Regularized estimation of large-scale gene association networks using graphical Gaussian models

(2009) Nicole Krämer et al.   BMC BIOINFORMATICS

The empirical Bayes approach as a tool to identify non-random species associations

(2009) Nicholas J. Gotelli et al.   OECOLOGIA