Book ChapterDOI
Compositional dissimilarity as a robust measure of ecological distance
TLDR
In this article, the authors evaluated the robustness of quantitative measures of compositional dissimilarity between sites using extensive computer simulations of species' abundance patterns over one and two dimensional configurations of sample sites in ecological space.Abstract:
The robustness of quantitative measures of compositional dissimilarity between sites was evaluated using extensive computer simulations of species’ abundance patterns over one and two dimensional configurations of sample sites in ecological space. Robustness was equated with the strength, over a range of models, of the linear and monotonic (rank-order) relationship between the compositional dissimilarities and the corresponding Euclidean distances between sites measured in the ecological space. The range of models reflected different assumptions about species’ response curve shape, sampling pattern of sites, noise level of the data, species’ interactions, trends in total site abundance, and beta diversity of gradients.read more
Citations
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Journal ArticleDOI
Non-parametric multivariate analyses of changes in community structure
TL;DR: Which elements of this often-quoted strategy for graphical representation of multivariate (multi-species) abundance data have proved most useful in practical assessment of community change resulting from pollution impact are identified.
Journal ArticleDOI
A new method for non-parametric multivariate analysis of variance
TL;DR: In this article, a non-parametric method for multivariate analysis of variance, based on sums of squared distances, is proposed. But it is not suitable for most ecological multivariate data sets.
Journal ArticleDOI
phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data.
Paul J. McMurdie,Susan Holmes +1 more
TL;DR: The phyloseq project for R is a new open-source software package dedicated to the object-oriented representation and analysis of microbiome census data in R, which supports importing data from a variety of common formats, as well as many analysis techniques.
Journal ArticleDOI
Ecologically meaningful transformations for ordination of species data
TL;DR: Transitions are proposed for species data tables which allow ecologists to use ordination methods such as PCA and RDA for the analysis of community data, while circumventing the problems associated with the Euclidean distance, and avoiding CA and CCA which present problems of their own in some cases.
Journal ArticleDOI
Fitting multivariate models to community data: a comment on distance‐based redundancy analysis
TL;DR: The distance-based redundancy analysis (db-RDA) as mentioned in this paper is a nonparametric multivariate analysis of ecological data using permutation tests that is used to partition the variability in the data according to a complex design or model, as is often required in ecological experiments.
References
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Journal ArticleDOI
An Ordination of the Upland Forest Communities of Southern Wisconsin
Roger H. Bray,John T. Curtis +1 more
TL;DR: It is shown that nature of unit variation is a naajor problenl in systematies, and that whether this variation is diserete, continuous, or in some other form, there is a need for appliGation of (uantitative and statistical methods.
Journal ArticleDOI
Multidimensional scaling by optimizing goodness of fit to a nonmetric hypothesis
TL;DR: The fundamental hypothesis is that dissimilarities and distances are monotonically related, and a quantitative, intuitively satisfying measure of goodness of fit is defined to this hypothesis.
Journal ArticleDOI
Nonmetric multidimensional scaling: A numerical method
TL;DR: The numerical methods required in the approach to multi-dimensional scaling are described and the rationale of this approach has appeared previously.
Journal ArticleDOI
A General Coefficient of Similarity and Some of Its Properties
TL;DR: A general coefficient measuring the similarity between two sampling units is defined and the matrix of similarities between all pairs of sample units is shown to be positive semidefinite.