multiqc adding different file names and repeating same file twice
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2.1 years ago
valizad2 ▴ 20

Hello all,

I have an issue with the output of multiqc. Everything looks good but for some of my outputs such as STAR alignment, for example, I get a graph that shows same file in two version of names, I checked and my files are named similarly in all of the folders. I used fastqc, STAR alignment and featureCount output as input. How can I attach a picture here?

multiqc • 831 views
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How to add images to a Biostars post

If you think you have discovered a bug then post it on MultiQC GitHub site.

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2.1 years ago
valizad2 ▴ 20

I think the reason this was happening was because I had a subfolder inside the folders I shared with the multiqc, and it seems multiqc can actually access the files inside those as well. I deleted that folder and the output looks fine now. Thanks!

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