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Hi fox, I am doing some analysis on the alpha-diversity on the microbiome data I have. The core-metrics run great but I am having trouble with Chao1. I am using qiime2-2018.11.
I was able to do the rarefaction curve based on Chao1:
qiime diversity alpha-rarefaction
Then I calcualte the Chao1 index:
qiime diversity alpha
This generates a qza file that allows to obtain the tsv file directly (export) or obtaining the qzv file. When I visualize the qzv file I can see the table with the values but there are not box and whiskers, like in the other index of core-metrics.
I can do the box and whiskers in excel with the tsv data, but I am wondering if there is any why to get them represented in qiime2 as for the others in core-metrics.