Trimming data inside or outside qiime2?

[thermokarst]

Hey there @lmanchon, we have already answered this general question when you asked here:

Manifest file for paired-end reads

--Hi, I use demultiplexed paired-end libraries stored in multiple fastq.gz files. Is there a way to add columns in manifest file to set experimental conditions (times, drug, sex) corresponding to each library ? Or i need to run qiime separately for each condition ? thank you --

Have you had a chance to read and practice the Moving Pictures tutorial? Besides the links we provided in the other topic, this tutorial demonstrates several different ways that metadata is incorporated throughout an analysis.

:qiime2: