Hi Daniel! Thank you so much for this amazing work.
I have a question, which command do you recommand me to use with data obtained by DADA2 using V4-V5 primers 515FB-926R.
Kindly,
Javiera
Hi Daniel! Thank you so much for this amazing work.
I have a question, which command do you recommand me to use with data obtained by DADA2 using V4-V5 primers 515FB-926R.
Kindly,
Javiera
Hi @raincx,
In Qiita (https://qiita.ucsd.edu), we developed and rely on Deblur so I have limited hands on experience with DADA2. We placed 90, 100, 125, and 150nt fwd read ASVs from 515F into Greengenes2, so I would anticipate reasonable overlap with your data assuming operating on the fwd read and the trim length matches -- the command for that is filter-features
. If use of the reverse read is important for a specific question being asked, then the closed reference action with vsearch would be needed through the non-v4-16s
action.
Best,
Daniel
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