Code to Remove Unwanted OTUs with decontam (Mothur 1.48.0) or alternative method for remove specific OTU

1

Hello,

I’m currently using Mothur 1.48.0 for my 16S rRNA analysis, and I have identified some unwanted OTUs, specifically cutibacterium_otu00011. I would like to remove these OTUs using R with the decontam package. Could you please confirm if you have any R code examples for removing unwanted OTUs using decontam?

Or do you have alternative option for me in mothur functions?

Thank you!

2

Sorry, I’ve never heard of or used decontam.

Pat