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Hello,
I encountered into some problems while using this native pav to call SV from assembly-hap and I tried many times and still couldn't make it. If you can give me some suggestions, I'd appreciat…
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### Code of Conduct
- [X] I have read and agree to the [Code of Conduct](https://github.com/vmware/terraform-provider-vcf/blob/main/CODE_OF_CONDUCT.md).
- [X] Vote on this issue by adding a 👍 [reacti…
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Hi there,
Thanks again for building this great tool. I have been trying to call somatic SVs with savana 1.2.4 on a rhabdoid tumor, where I am expecting there to be somewhere between 10-20 somatic S…
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## Describe the issue
Some BND variants are missing vep annotations, while the rest have them.
## Additional information
### System
- VEP version: 113
- VEP Cache version: 113
### Full VEP…
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# Context
Genetics etl dag described by the image below
should be possible to execute in two modes:
- run wi…
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Hi,
Thank you for the nice tool! I am recently using severus for SV calling and was attracted by Wakhan. However, when I tried to run it on my Pacbio data, an error was reported.
The error is:
`…
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I was testing `pipeline_v6.0` branch of `nf-core/oncoanalyser` in targeted mode. `purple` failed as below only for some of the samples. Same [issue](https://github.com/nf-core/oncoanalyser/issues/100)…
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**Have you checked the FAQ? https://github.com/google/deepvariant/blob/r1.6.1/docs/FAQ.md**:
**Describe the issue:**
I am trying to add the flags --parse_sam_aux_fields=true --use_original_quality…
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## Describe the issue
I am getting the following error and I've narrowed it down to a single line VCF:
```
substr outside of string at /opt/vep/src/ensembl-vep/Bio/EnsEMBL/Variation/Utils/Variati…
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Nice tool!
But when I used locityper to genotyping HGDP reads on my interested loci (five prime utrs which are usually shorter than 500 bp) with the command:
```
locityper add -d db -v vcf/chr21.vc…
yeeus updated
2 weeks ago