'Extract Alpha Diversity Output into excel or .csv file from phyloseq package
Does anyone know how to extract alpha diversity outputs from the estimate_richness() function from the phyloseq package? I am having a hard time finding the correct way to format the data. I also use the Dunn Test and want to extract the Z and p-values.
alpha.pb2<-estimate_richness(post.bloat.two)
cbind.pb2 <- cbind(sample_data(post.bloat.two), alpha.pb2)
dunnTest(Chao1~location, data=cbind.pb2, method="bh") #want to extract this output
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