This is the topic we can use to sort out these issues.
For each problem with FastQC and MultiQC you can post back a share link to the history with that error and we can help to troubleshoot it here. That link will include all the details and is very easy to generate. You can post the link back here in a reply, and include a few details like which dataset we should look at, any error messages you found and how you tried to address them, or if you are not sure where to look you can state that and we’ll explain. You can unshare after we are done. See details here → How to get faster help with your question
If you don’t want to post back the share link for some reason, you can capture all of the details of your run and we can try to troubleshoot that way instead. For each problem, we’ll need the following: server URL (this is at the top of your browser window), then everything on the job details view (i-icon). Fully expand and copy/paste the peek view of the input and output datasets, the job parameters, and the contents of all the log sections.
If you are already following a tutorial, you can also link that back here for more context.
Hopefully we can solve these, and if you are able to solve it first let us know, thanks!
Xref
- Hands-on: Quality Control / Quality Control / Sequence analysis
- GTN Tutorials for FastQC: Read Quality reports
- GTN Tutorials for MultiQC: aggregate results from bioinformatics analyses into a single report
- Related fastqc multiqc quality-control