Mycobiome_ITS_Remove primers & barcode sequence


(pooja) #1

Hello everyone,

I have a data set for targeted sequencing (ITS). So far, I have completed my steps for importing the data, summarizing and visualizing it. Before proceeding with DADA2 I want to remove the barcode and primer sequences. The primers are ITS5 & ITS2.

After going through the forum posts I am a bit confused about the best way to do this.
What is the best approach if I have multiple barcode sequences to remove?

I will be very thankful if anyone can guide me in this.

I have attached my metadata file for your reference.METADATA.tsv (1.7 KB)


(Nicholas Bokulich) #2

You can use q2-cutadapt for this. See this tutorial for an example with fungal ITS data: