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Updated Practical 3 Processing 16S rRNA amplicon data (markdown) authored by Ben Francis's avatar Ben Francis
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Practical-3-Processing-16S-rRNA-amplicon-data.md
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...@@ -167,3 +167,5 @@ So the bit above creates the function called `plotTaxon()`, which we can then us ...@@ -167,3 +167,5 @@ So the bit above creates the function called `plotTaxon()`, which we can then us
Happy plotting! Happy plotting!
(Hint - try Desulfobacterota (with reduced minimum abundance) or Campilobacterota, or try changing the taxonomic level you view, to see what inferences you can make about your samples) (Hint - try Desulfobacterota (with reduced minimum abundance) or Campilobacterota, or try changing the taxonomic level you view, to see what inferences you can make about your samples)
If you want to look at subsets of the data, try selecting just a handful of rows of interest from the `seqtab.nochim` object and feeding that into the plotting function.
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