negative control ASV

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1

I run dada2 with samples plus negative control in Qiime2, 11.2011.

Could you please suggest how can I remove ASV which were detected in negative control from the samples?

Thanks
Yogesh

2

Hi @Yogesh_Gupta,
While you could simply filter the content of your negative control from your overall feature table using filter-features, this is not a good idea.
The idea of dealing with contaminants is a very complex one with no perfect solution, though there are some options. There has been some excellent discussions on this forum that I encourage you to read on. For example, this thread is an excellent start.

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