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How to analyse multiple files in FastQC

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

analysis fastqc rna-seq bulk
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written by AlonsoCid • AlonsoCid

1 answer 

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

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

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written by SushiRoll • SushiRoll

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

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written by AlonsoCid • AlonsoCid

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