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Good afternoon,
The SMuRF section of our PTATO job has been running since 2023-04-26. We want to confirm this is not because of a bug. That is, that SMuRF's performance is the result of our data…
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### Description of bug
_From [Slack](https://multiqc.slack.com/archives/C04QMP84K5L/p1695033854534519):_
---
Hi, I am new to MultiQC. I am running testfull profile on nf-core Sarek pipeline v3.…
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https://github.com/tgen/vcfMerger2/blob/8ed9a05b7a23c8a0c2db80fcf83683c35f6602a7/prep_vcfs_somatic/strelka2/strelka2.phasing_consecutives_variants_as_blocs.sh#L197-L206
Example of edge case:
```
…
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Hello Team,
I am trying to use PureCN with a matched tumor and normal samples, however, it's throwing an error. I am attaching the log file here. I have used CNVkit for segmentation and Mutect2 (G…
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## Description
TNscope VCF is missing GQ-values. Therefore, SNVs are not being uploaded to the `loqusdb-somatic` database.
It has been solved in Loqusdb side in https://github.com/Clinical-Geno…
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As noted in [ticket](https://github.com/icgc-argo/workflow-roadmap/issues/348), we have audited all the ICGC25k data in Collab.
This the summary of ICGC25k-PCAWG Non-US data across various reposit…
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Hi dxCompiler team,
One of the scientists I work with is reporting an issue with one of her workflows in that an execution is not starting on DNAnexus even though all of its inputs are satisfied.
…
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Hello, Thank you for making this amazing software.
I encountered this error during 81 samples cohort analysis.
How can I fix this?
I'm using R 4.3.0 and superFreq 1.4.5
Loading /home/ngs/…
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Hi!
Thank you for the wonderful documentation and the tool! Please excuse if the question seems stupid.
We are trying to generate the model on our own datasets (TN pairs, in canine) and were won…
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### Description of the bug
Hi,
I recently run sarek with the UMI pipeline for WES data, it successfully finishs but only performs alignment and does not perform variant calling.
For the UMI pipelin…