Density Dependence Workshop

11-13 October 2011

Beijing | China

Instructors

Dr. Liza Comita | Dr. Simon Queenborough

Objectives

  1. Understand the theory and mechanisms of negative and positive density dependence
  2. Understand how to conduct analyses of forest plot data to look for evidence of density dependence, using R

Course Schedule

Day 1. Introduction to density dependence and neighbourhood analyses

Lecture 1: Introduction to Density Dependence   | slides

Lecture 2: Introduction to Neighborhood Analysis   | slides

Lab 1: Calculating neighbors in R   | Rcode  | data | packages: spatstat

Case Study: Neighborhood effects on seedling survival in a tropical forest, Panama    | slides

Lab 2: Using LM and GLM to analyse density-dependent growth and survival   | Rcode | data

Lab 1 answers

Day 2. Variation in density dependence

Lecture 3: Variation in Density Dependence   | slides

Case Study: Abiotic and biotic drivers of seedling survival in a hurricane-impacted forest   | slides

Lab 3: Testing for variation in density dependence using GLMM   | Rcode 1, 2 | data 1, 2 | packages: lme4, geoR

Lecture 4: Community-level consequences of density-dependence   | slides

Case Study: Community-level consequences of density-dependence and habitat association   | slides
                   in  a subtropical broad-leaved forest [Chen Lei]

Lab 4: Testing for a CCT using GLMMs [Chen Lei]   | Rcode | data | data | data | packages: lme4


Day 3. Extending density dependence analysis


Lecture 5: Extensions of Density Dependent neighborhood models: beyond conspecific vs. heterospecific   | slides

Case Study: Phylogenetic neighborhood effects on seedling survival in Puerto Rico   | slides

Lab 5: Phylogenetic neighborhood analysis   | Rcode | data 1, 2



Links

Introduction to R course

Likelihood Methods Course