Using adonis and betadisper from the vegan R package to compare groups (CC208)

In this episode of Code Club, I provide a tutorial on using the adonis and betadisper functions from the vegan R package to compare groups of microbial communities. Along the way, Pat will review how to make an ordination with indicators of the centroid and ellipses around the points. We'll also discuss how to perform analyses with two variables simultaneously. He'll demonstrate this approach by using functions from vegan, dplyr, and ggplot2.

You can find my blog post for this episode at https://www.riffomonas.org/code_club/2022-04-28-adonis-betadisper. The data were generated in our Kozich et al. 2013 paper (http://doi.org/10.1128/AEM.01043-13) using samples from the Schloss et al. 2012 paper (http://doi.org/10.4161/gmic.21008).

#microbiome #tidyverse #R #Rstudio #Rstats #ggplot2

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0:00 Testing for differences in community structure
2:09 Creating ordinations from count data
13:43 Using adonis for single variable
17:15 Using adonis for two variables
19:44 Caveat emptor: Using betadisper