Community Ecology analysis using R: basic intro

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! High-Level programming language with statisticalorientation but not limited to that. Produces high qualitygraphics.! Why using R?! Free! Community supported! Great flexibility! Many packages available for ecology and phylogenetics! Speed-up processing times! However…! It may take some time to learn using it
! Where to get R:! http://www.r-project.org/! Mirror for Norway: http://cran.uib.no/! Precompiled versions for Linux, MacOSX, and Windows! It is preinstalled in several Linux and MacOSX distributions,check if you have it by doing > R
Page 1: Community Ecology analysisusing R:
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 20 and 21: * Shannon H index (considers richne
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

Community Ecology analysis using R: basic intro

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