Metagenomics Analysis pipeline for Illumina paired end Sequences

Question

[avinashbelure3]

I have Illumina paired end Sequences (-phred33) fastq format raw data for metagenomics analysis. How do I use qiime-2 tool for analysizing, please suggest a pipeline with other tools.

[i.sudbery]

In order to get a more useful response, you should include more details in your question - for example, what exactly is your data? Is it shotgun metagenomics, or is it 16S RNA sequences or other selected sequences? What questions are you hoping to answer. Have you gone through the tutorials on the qime-2 website, and if so, which parts of them are you struggling with, or what do you need additional help with?