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I `git cloned` the Github repository on my HPC but when I tried to do the following installation:
**Command:**
```
devtools::install_github("aschluter/ClinPrior")
```
**Error:**
```
Dow…
yr542 updated
3 weeks ago
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Currently, we do a get_or_create in here ```annotation.annotation_versions.get_variant_annotation_version``` which is triggered by visiting annotation pages
Better to do in management command and/or …
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### Description of the bug
Currently the columns **_variant details (genomic)_** and **_variant details (protein)_** are only filled when using snpeff as annotation tool , not VEP. Is there a chance …
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**Snakemake version**
### `Snakemake`
> 5.23.0
### Wrapper
**Issue**
I'm trying to adapt my regular VEP code to use the snakemake wrapper instead but am running into an issue.
I …
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For each VEP gene hit, collect the associated GO terms and generate a table with the fields cultivar, snp, gene, go terms, and any other interesting annotations from VEP.
Could use the GO VEP plugi…
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## Describe the issue
When you run VEP against a VCF record with a reference that is different from the fasta sequence, the consequences are calculated against provided base, while HGVS is calcualt…
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Can we also support IDs under annotation-controller?
- [x] `/annotation/dbsnp/[dbsnp_id]`
- [ ] `/annotation/cosmic/[cosmic_id]`
- [ ] `/annotation/hgmd/[hgmd_id]`
We can utilize the following…
jjgao updated
6 years ago
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**Background**:
- [Genome Nexus](https://www.genomenexus.org/) is a comprehensive resource integrating variant annotations from more than a dozen sources relevant to cancer. The annotations can be a…
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Hi there!
In the manuscript, you mentioned that "VEP (version 102.0) was used to annotate variants generated by dipcall when aligning the T2T-CHM13 reference genome (chm13_v1.0_plus38Y.fa) to the …
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## Describe the issue
If two custom annotations with the same name are provided, vep will annotate the VCF using first custom annotation and ignore the second annotation source. Expectation was an er…