How to analyse multiple files in FastQC

Question

[AlonsoCid]

Hello,

I would like to create quality reports of some files using FastQC, the problem is that I have like 20 and doing it one by one is a waste of time, I have to wait between analysis. Do you know any way to tell the program to analyse all the files?

Thanks for your time, Alonso

Answer 1

[Michael]

fastqc -t4 *.fastq.gz # run fastqc on all fastq.gz files in directory using 4 parallel threads

[AlonsoCid]

Thanks, it worked :D

[SushiRoll]

I would add that using MultiQC after that would help with visualisation, going one by one might be a little tedious.

[AlonsoCid]

Thanks that was another problem, I'll use it.