Thank you. Right now I finally got my diversity and taxonomic bar plots visualization successfully. But I have a few questions.
Is there a way to edit the taxonomic bar plots to reveal just the most abundant taxa at the species level.
What better platform can I use to visualize my qiime2 visualizations.
There isn’t anything in qiime2 that lets you readily visualize only the most abundant taxa. You could try using the filtering plugins to remove rare taxa and visualize again but that would be changing your compositions. The easiest way to do this would be to do it outside of qiime2. I personally use R for this kind of stuff, especially the phyloseq package is very useful and has lots of online tutorials exactly for this kind of visualization. Lots of ways to do this with python as well. But what platform you use is totally up to you, what you are comfortable with and what you are trying to do. You could even do this in excel if you really wanted to!
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