I'm currently learning how to assign taxonomy to gut microbiome data. I'm using DADA2 R package for that and following its tutorial from the official page. When reading some papers, I realize that there are many parameters that can be adjusted before filter and trim your data.
As long as I have almost 0 knowledge about that, I decide to read about. I found FIGARO: it can estimate the best parameters to filter and trime so you can squeeze your amplicon data properly.
So, my questions are: Does it worth to use FIGARO? Do you have any resource that I can use to learn how to estimate this parameter by myself? (I googled it, but find no matterial)
Thank you in advance!