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### Description of the bug
Hi,
I tested the pipeline using a cluster configured to use **Kubernetes**.
The multiqc is unable to find the `multiqc_config.yml`
### Command used and terminal ou…
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- [x] Remove all donwstream analyses e.g., DeSeq & PCA
- [x] change script [[count-matrix.py](http://count-matrix.py/)](http://count-matrix.py/) line 40 sep="\t" to sep = ","
- [x] switch to one s…
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`samtools rmdup` is deprecated and has been replaced by `samtools markdup`. If possible we should extend MultiQC to include markdup (or replace)
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Any plans to add a `MultiQC` module for `seqkit`? It would be quite usefull for the `seqkit stats` function.
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### Description of the bug
Once the pipeline finishes and some email is set, it will not finish sending it. Attached the logfile of whats going on in the background, doesnt matter if i keep the hook_…
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Every now and then, someone runs MultiQC on two sets of files and then wants to generate a combined report from those two runs without accessing the original log files. This isn't really possible curr…
ewels updated
4 weeks ago
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@dfbautista A few minor updates, then we can merge this branch into the master:
- currently the multiQC report for each project is created and housed in the project specific subfolder ('runfolder'\…
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Hi,
I have been trying to run multiQC from the 4SeqGUI and also from the terminal but i am getting the following (see image) report.
I can see the command -> multiQC(group = group, data.folder =…
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Create a [MultiQC module](https://multiqc.info/docs/#writing-new-modules) that uses the JSON output of [`khtools extract_coding`](https://github.com/czbiohub/kh-tools/pull/8) and can be added to the […
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Dear Alexander Lab.
I'm trying to setup EukHeist for detecting microalgae from snow samples, and I'm having some trouble.
I'd appreciate some help!
After installing and running my samples I'm…