Identifying shared and exclusive taxa (Venn diagrams)

Hello Qiime wizards!

I'm trying to determine the shared and exclusive taxa in my samples and to represent it by a Venn driagram. I read something about core-features, but I think that I'm not doing well, since I got something like this:

core-features-0.500.tsv (575 Bytes)

I don't know how to interpret these results or how to include it into the online tools.

Thank you in advance!!



Let's go through it step by step!
First of all, since you want to get core taxa, you should collapse your feature table to desired taxonomy level (genera, as example).
Next step will be dividing your feature table on several separated tables according to the metadata column, that should be used in your Venn diagram (sampling site, treatment, source, etc).
Then you can run core-features command for each of obtained tables. Extract from visualization .tsv file at desired threshold (percentage of samples that should be considered as "core" (100%, 80% etc)), or just copy shared taxa from visualization in browser and use R, Python or online tools (Venny, InteractiVenn) to create a Venn diagram with taxa.


1 Like

This topic was automatically closed 31 days after the last reply. New replies are no longer allowed.