DepGEM implements the method described in the paper Bayesian nonparametric dependent model for partially replicated data: The influence of fuel spills on species diversity by Arbel et. al.
The code in this package (including the sampling algorithm and main functions) was written by Julyan Arbel. The package (i.e. the packaging of the code into an R package that builds and passes some checks) was written by Amy Willis.
This package is in development mode
Check out the vignette "Getting started with DepGEM" to learn how to use the package.
-
Arbel, Julyan; Mengersen, Kerrie; Rousseau, Judith. Bayesian nonparametric dependent model for partially replicated data: The influence of fuel spills on species diversity. Ann. Appl. Stat. 10 (2016), no. 3, 1496--1516. doi:10.1214/16-AOAS944. https://projecteuclid.org/euclid.aoas/1475069616
-
Supplementary Material for the paper “Bayesian nonparametric dependent model for partially replicated data: the influence of fuel spills on species diversity”, by Arbel et al., arXiv preprint, arXiv:1402.3093 (2015)
-
Application of a Bayesian nonparametric model to derive toxicity estimates based on the response of Antarctic microbial communities to fuel contaminated soil, by Arbel et al., Ecology and Evolution (2015)
-
Full Dataset Reference: Snape I, Siciliano S, Winsley T, Van Dorst J, Ji M, Palmer A, Lagerewskij G (2015) Operational Taxonomic Unit (OTU) Microbial Ecotoxicology data from Macquarie Island and Casey Station: TPH, Chemistry and OTU Abundance data. Australian Antarctic Data Centre. doi:http://dx.doi.org/10.4225/15/54FFBE1DE34DF