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### Description of feature
Hi,
Thank you for creating this awesome pipeline. I'm wondering if there are any modules within sarek that do disambiguation of mouse and human reads for PDX samples? Fo…
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### Description of the bug
I have previously processed the GRCh38 genome with bwameth for a different pipeline that I'm trying to compare with the nf-core. So I provide the following with the input c…
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Hallo again,
This something new:
```bash
DNA-mapping -i /mnt/Z/Shared\ folder/Shared\ data/DNA/NGS_AP06_apouikli_A006200409/ -o /mnt/Z/Shared\ folder/Shared\ data/DNA/NGS_AP06_apouikli_A006200409/b…
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Hi,
Thanks very much for the great tool. We've been trying CRAQ out in several of our assembly projects and we sometimes run into strange behavior where analysis seems to finish ok, but low_confidenc…
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To reduce cost, our lab uses combinatorial dual indices (HiTOM primers) to multiplex NGS reactions. The pipeline looks something like this:
Merge paired-end reads: FLASh
Demultiplex/split based on…
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## Background
Cloud-Pipeline has flexible model of object `metadata` along with project templates.
With this model a lot of common tasks could be accomplished, such as grouping and managing togethe…
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### Description of the bug
Hi!
I'm running the pipeline with the following pipeline:
```
nextflow run nf-core/circdna \
-r 1.0.4 \
-profile docker \
-resume \
--max_cpus 9 \
--max_memory …
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Hi,
I'm having issues trying to run SigProfiler for CNV data using custom CNV calls. We have an in-house pipeline for CNV calls that is similar to the ASCAT approach, tailored to our WGS data. I t…
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Hi,
When trying to run admin/Build_Trinotate_Boilerplate_SQLite_db.pl Trinotate, I receive the following error:
admin/Build_Trinotate_Boilerplate_SQLite_db.pl Trinotate
* [Tue Nov 14 16:45:31 2…
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**Describe the bug**
Hi, i was running the pipeline for TF with error. And the error was pasted in the bottom.
....
[Caper] troubleshooting 49bc38e3-3a8d-4c65-8d22-5c4dc2f37f74 ...
Found failur…