Recent Advances in Spatial Analysis

of Multivariate Ecological Data: Theory and Practice


Universitad de Panama

Panama City, Panama

February 22-26, 2016


Pierre Legendre

Université de Montréal


This page contains links to various documents and programs that will be used during the course

Course outline, Panama 2016


Documents in PDF format

Day 1

"Algebra of Principal Component, Correspondence, and Principal Coordinate Analyses" (Teaching document)

"File: Script_graphic_rotation_3-D.pdf" (R demonstration)

"From classical to canonical ordination" (Chapter)

"Contingency table analysis" (Teaching document)

"Transformations for ordination of species data" (Chapter extract)

"Ordination methods for community composition data" (Figure)

Day 2

"Some measures of resemblance" (Teaching document)

"Symmetrical and asymmetrical coefficients" (Teaching document)

"Is Miss America an undernourished role model?" (Article)

"Multiple regression: computing the parameters by matrix inversion" (Teaching document)

"R-square, adjusted R-square, AIC, F-statistic" (Chapter extract)

"Polynomial regression, trend surface analysis" (Teaching document)

"Partial linear regression and variation partitioning" (Chapter extract)

"Partial and semipartial correlation" (Chapter extract)

"Multiple regression with permutation test" (R function)

Day 3

"Statistical tests, permutation tests" (Chapter extract)

"Permutation test summary" (Classroom notes)

"Canonical analysis" (Classroom notes)

"General linear model" (Classroom notes)

Day 4

"Origin_of_spatial_structures" (pdf of a PowerPoint presentation)

"Beta diversity partitioning" (pdf of a seminar)

"Replacement and richness difference components of beta diversity" (pdf of a seminar)

Day 5

"Spatial eigenfunction methods" (pdf of a PowerPoint presentation)

"Other eigenfunction-based methods of spatial analysis" (Chapter extract)

"Test of space-time interaction" (pdf of a PowerPoint presentation)

"Is the Mantel test useful for spatial analysis in ecology and genetics?" (pdf of a seminar)

Published papers referred to in the course

"Distance-based redundancy analysis, Ecological Monographs 1999" (Article)

"Response of 20 native tree species, Ecological Applications 2002" (Article)

"Dissecting the spatial structure of ecological data at multiple scales, Ecology 2004" (Article)

"Analyzing beta diversity: partitioning spatial variation of community data, Ecol. Monographs 2005" (Article)

"Modelling the effect of directional spatial ecological processes at different scales, Oecologia 2011" (Article)

"Legendre & De Caceres, Beta diversity partitioning, Ecology Letters 2013" (Article)

"Legendre, Repl and Rich.diff components of beta, Global Ecology and Biogeography 2014" (Article)

"Legendre & Gauthier, Space-time analysis, Proc. Roy. Soc. B 2014" (Article)

"Legendre et al., Mantel paper, Methods in Ecology and Evolution 2015" (Article)


Practicals in R

Practicals last updated in February 2016

Folder containing practicals using the R statistical language

Folder containing 3 exercises in R on spatial eigenfunction analysis

Instructions for report


R functions and PDF reprints from the lab of Pierre Legendre