Automated analysis of amplicon sequence datasets from multiple FASTQ files
0
0
Entering edit mode
27 days ago
Bio_12 • 0

Hello,

Does anyone know how to analyze a large number of FASTQ files from different datasets on NCBI to generate an abundance table? I tried using DADA2, but since it requires running separately for each dataset due to the error model, I am looking for a more automated solution. I found Ampliseq from Nextflow, but it is designed to run multiple datasets from the same technique and DNA extraction method.

I was considering using the OTU instead of the ASV construction method. But, I am not sure if using OTU construction would allow me to process all different datasets in a single run.

Does anyone have suggestions or know of a method to handle this?

Thank you!

DADA2 AMPLICON OTU ASV • 138 views
ADD COMMENT

Login before adding your answer.

Traffic: 2698 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6