| ... | ... | @@ -181,7 +181,7 @@ Make some basic diversity plots and rarefaction curves |
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Now let's visualise the composition of our sample communities using basic barplots. For this, we first need to calculate relative abundance
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physeq_herschel_rel <- transform_sample_counts(physeq_herschel, function(otu) otu/sum(out))
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physeq_herschel_rel <- transform_sample_counts(physeq_herschel, function(otu) otu/sum(otu))
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physeq_herschel_rel
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First let's plot phylum-level composition
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