I am new to bioinformatics and will be doing some fungal metabarcoding work. My question is: Is there a step-by-step guide on how to do metabarcoding? And how do I find the plugins that I will use in my analysis?
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Hello Cassiano,
Welcome to the forums! 
No single step-by-step guide perfectly covers all fungal metabarcoding analyses, as specifics depend on your data/goals. However, we do have several very detailed step-by-step tutorials here: Tutorials — QIIME 2 2024.10.1 documentation
These are designed for folks new to bioinformatics, so that is a great place to start!
Once you have completed these, you can try them on your data. The big thing to change is the database used for 16S vs Fungal ITS. You can also ask here about ITS-specific best practices after completing those tutorials.
Lots of included Qiime2 amplicon plugins are listed on this page: Available plugins — QIIME 2 2024.10.1 documentation
Even more plugins are listed here:
https://library.qiime2.org
Those big lists are a little overwhelming, so I would start with one of the tutorials and go from there.
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Thank you so much!
I will tryed .