Community Ecology analysis using R: basic intro

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Community Ecology analysis using R: basic intro

Community Ecology analysis using R: basic intro

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Beta diversity! Investigates the diversity between communities (samples/sites)

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* Shannon H index (considers richness and evenness):>SHANNONSIMPSON

Beta diversity! Investigates the diversity between communities (samples/sites)

Page 1 and 2: Community Ecology analysisusing R:
Page 3: ! Where to get R:! http://www.r-pro
Page 6 and 7: ! To see the variables that were de
Page 8 and 9: ! Working with tables:> getwd() #ge
Page 10 and 11: ! Analysis using Vegan (R functions
Page 12 and 13: owSums(OTU_table) # Find the sample
Page 14 and 15: ! Let’s get some richness estimat
Page 16 and 17: ! Accumulation curves (using Ugland
Page 18 and 19: ! We can also fit several rank-abun
Page 22 and 23: ! We use a subsampled OTU table in
Page 24 and 25: plot(OTU_ss_n.bray.nmds)>stressplot
Page 26 and 27: ! Detrended Correspondence Analysis
Page 28 and 29: ! A linear regression model can be
Page 30 and 31: ! Other packages:! Labdsv (http://e