Quick question, I sequenced samples using V4 primers however the barcodes are now on the forward primer. I used Qiime 2 to demultiplex using the script
qiime demux emp-paired
When I look at the counts summary I have some samples that have a sequence depth in the 200,000 range while others are in the 7000 range the average depth of 7807 with a minimum of 31. This is my first time demultplexing using these new primers. Should I be concerned about the count summary. Did I do something wrong?
Thank you for your help.