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Our use case is variant calling on the output of a targeted amplicon assay on many samples in parallel. The way that `clair3_c_impl.sh` parallelizes the pileup calling step in this case is inefficient…
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Hi @edsu7
Could you please update the Purpose of Sequencing to Targeted Surveillance for the following sample from NS?
| specimen collector sample ID | old PoS | new PoS |
|---|---|---|
| NS_…
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Hi Steven,
This is more a question than an issue, but I couldn't find any other way to communicate with you.
We are regularly running DRAGEN as a secondary pipeline, with Illumina's recommended alt-…
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While reviewing https://github.com/moby/moby/pull/40820, I noticed that support for zstd was merged in master (proposal: https://github.com/opencontainers/image-spec/issues/787, implementation in http…
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### Description of the bug
Hi, I run into the following error with running mutect2 via sarek:
```
INFO: Converting SIF file to temporary sandbox...
Using GATK jar /usr/local/share/gatk4-4.4.0…
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Test LangChain ability to use cBioPortal API
* https://python.langchain.com/docs/integrations/toolkits/openapi/
* https://docs.cbioportal.org/web-api-and-clients/
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Hi there,
Is it necessary to rarify the count data based on sample containing lowest number of sequences before starting iCAMP analysis ?
Regards,
Dinesh
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Hi, I'm not seeing any way to limit MuSE to run only on specific genome intervals. At a minimum we would find it very helpful to be able to limit the calls to the main chromosomes, avoiding for exam…
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Hi there,
I'm interested in your work and hopefully you could help answer a few questions:
1. Do you think OncoNPC with the trained model is applicable on WGS or other panel cancer sequencing d…
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Hi, I'm currently using the updated version of monopogen. the cell scan module returns three files, namely: chr1.cell_snv.cellID.csv:
cell,id,index
AGGATAATCTATTGTC,68986,0
ACTACGAGTTTGTGGT,42356,1…