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### Description of the bug
- If there are two FastQC sections displaying the read stats before/after preprocessing, then why are there six samples in each FastQC diagram? I'm expecting 3 samples, a…
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A recent MultiQC update broke the pipeline. I've switched back to a past version and it's running fine, but it would be nice to stay current.
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I have installed AMR++ on our local computing cluster. I have been trying to get it running on our cluster, and have run into a problem with the multiqc part of the pipeline.
I currently am runnin…
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Hello,
I've been working with CARLIN data using the prior MATLAB pipeline and was very excited to migrate to this improved snakemake_DARLIN implementation for batch submissions. I would like to run t…
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### Description of feature
See: https://github.com/nf-core/fastquorum/pull/42#discussion_r1608511337
E.g. add metrics produced by `GroupReadsByUmi`: See: https://github.com/MultiQC/MultiQC/blob/ma…
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### Description of feature
Having individual QC reports for each sample is nice, but it would be cool to have one aggregated report that gives an overview of all samples to quickly identify problemat…
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## DISCLAIMER
This could affect other metrics in other assays
## Description
Adriana sent me a request to plot some GC coverage data for a recent CEN run. While attempting to plot, i got errors…
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### Description of bug
multiqc cannot output the corresponding file. Trying the tsv and yaml files that pairtools stats outputs as input to multiqc doesn't work either. v1.20 and v1.12 versions of mu…
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Need summary report and full report for QC.
## Summary report
- General
- ToLID
- Species
- Class
- Order
- Genome Traits
- Haploid Size
- Haploid Number
- Ploidy
- Sample…
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### Description of bug
This _seems_ like it might be related to a change in MultiQC, because it's a recent phenomenon. The MultiQC process hangs for me in Docker (Colima) while running the nf-core/…