Is it possible to progress further if you don't know the primers of the dataset?

Hello! I am working with data from published articles and they didn't state the primers that are used (and the co-authors dont reply me back). Some of them merged the sequences with primers still on. I can understand that primers are there because there are repeating sequences in the forward and the reverse, but i cannot find the actual primers in any way. What should I do? Thanks. (V3-V4 datasets)

Hi @Acelya_Dalgic,
Unfortunately I am not familiar with any way to find and remove primers without knowing what they are.

If you can figure out how long the primers are you could use the --p-trim parameter in dada2 to trim them from the beginning of the sequences.

Hope this helps!

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