qiime2 conversion script - DADA2 1.8 pipeline compatibility

[MChapa1]

Hello there,
I would like to know if it is possible to use the ASV tables obtained through the DADA2 pipeline in R (https://benjjneb.github.io/dada2/tutorial_1_8.html) as input for the qiime2 conversion script. Thanks in advance.

[JLammons14]

This may be too late, but I recently built a small R package that could help you out.
It can convert a phyloseq object to the Valencia format and can run Valencia in R environments. So if you put the output of the DADA2 pipeline into a phyloseq object you should be able to easily convert it to the format Valencia needs.
I've linked the related github page here: https://github.com/JLammons14/ValenciaInR

[Sada-mwatelah]

Thank you for this response. This is still helpful. Kind regards, Ruth

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________________________________ From: Lemon_Head ***@***.***> Sent: Friday, September 22, 2023 1:47 PM To: ravel-lab/VALENCIA ***@***.***> Cc: Subscribed ***@***.***> Subject: Re: [ravel-lab/VALENCIA] qiime2 conversion script - DADA2 1.8 pipeline compatibility (#3) This may be too late, but I recently built a small R package that could help you out. It can convert a phyloseq object to the Valencia format and can run Valencia in R environments. So if you put the output of the DADA2 pipeline into a phyloseq object you should be able to easily convert it to the format Valencia needs. I've linked the related github page here: https://github.com/JLammons14/ValenciaInR — Reply to this email directly, view it on GitHub<#3 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/ATHICMHCWL2DU7QDJP7YB2DX3XMNJANCNFSM4YEAHRRQ>. You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>