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--- en:alpha_beta_diversity [2016/06/25 16:15]
David Zelený
+++ en:alpha_beta_diversity [2016/06/25 17:20]
David Zelený [Diversity analysis]
@@ Line 1: / Line 1: @@
 ====== Diversity analysis ======
 FIXME
+Plan:
+Divide the chapter into alpha+gamma diversity section and beta diversity section. One option - use Jurasinsky et al 2009 schema and talk about inventory, differentiation and proportional diversity (inventory = alpha and gamma, differentiation = based on dissimilarity measures, incl. variation within compositional matrix and length of DCA axis; proportional - gamma vs alpha, additive vs multiplicative, using Hill's numbers for it etc.)
+Other option is to divide the whole topic into several chapters:
+  - alpha diversity (inventory diversity)
+    - includes species richness, Shannon entropy, Simpson concentration index, Hill's numbers, effective number of species
+  - rarefaction and accumulation curves, estimates of unseen species
+  - beta diversity
+    - differentiation diversity - Legendre's approach, incl. LCBD, mean of pairwise dissimilarity indices, multisite dissimilarity indices
+    - proportional diversity - Whittaker's beta, beta based on Hill's numbers, Chao's beta diversity (beta differentiation)
 ===== Rarefaction and accumulation curves =====

Analysis of community ecology data in R