On modeling multivariate abundance data with generalized linear latent variable models
Year of publication
2020
Authors
Niku, Jenni
Abstract
The multivariate abundance data consist typically of multiple, correlated species encountered at a set of sites, together with records of additional covariates. When analysing such data, model-based approaches have been shown to outperform classical algorithmic-based dimension reduction methods. In this thesis we consider generalized linear latent variable models, which offer a general framework for the analysis of multivariate abundance data. In order to make the models more attractive among practitioners, new computationally efficient algorithms for the parameter estimation are developed by applying closed form approximation methods, the variational approximation method and the Laplace approximation method, for the marginal likelihood and by utilizing automatic differentiation tools when implementing the algorithms. The accuracy and computational efficiency of the methods are investigated and compared to existing methods through extensive simulation studies. The developed algorithms and additional tools implemented for model diagnosis, visualization and statistical inference are collected in R package gllvm. Several examples are provided to illustrate the use of the generalized linear latent variable models in ordination and when studying the between-species correlations and the effects of environmental variables, trait variables and their interactions on ecological communities.
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Publication type
Publication format
Monograph
Audience
Scientific
MINEDU's publication type classification code
G5 Doctoral dissertation (articles)
Publication channel information
Open access
Open access in the publisher’s service
Yes
Open access of publication channel
Fully open publication channel
Self-archived
No
Other information
Fields of science
Statistics and probability; Ecology, evolutionary biology
Keywords
[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object]
Publication country
Finland
Internationality of the publisher
Domestic
Language
English
International co-publication
No
Co-publication with a company
No
The publication is included in the Ministry of Education and Culture’s Publication data collection
Yes