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I ran the command according to the protocol (VEP version99) and I got the error message with the LOF annotation doesnt work at all:
Failed to instantiate plugin LoF: Can't open /vep/loftee/splice_d…
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Currently, we only parallelize VEP as far as bringing up a VM per VCF file, running VEP on each file, and storing newly annotated files back on disk. An attractive option for parallelizing VEP is to h…
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I tried to annotate my files with FunMotifs, but did not succeed:
Screenshot form the bed file:
![image](https://github.com/Ensembl/VEP_plugins/assets/73748542/2959ed7a-a052-4f76-9d28-14001abaa565)
…
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@jblachly any suggestions? I feel that our atomizer should be able to parse out information/annotations so that it is compatible with many different annotated vcfs. I assume we should be able to parse…
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**Is your feature request related to a problem? Please describe.**
Currently it is not clear how mehari compares feature-wise to other available solutions.
**Describe the solution you'd like**
Id…
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When testing the local VEP for variant annotation, only POST /annotation en GET /annotation/{variant} worked. As discussed over Slack, @inodb will take a look at the other 4 endpoints.
![image](ht…
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Add protein domains (from VEP annotations) to variant tables.
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Now that we have a new endpoint with version of VEP etc, it would be nice to add this information in the MAF header. That is include versions for:
- Genome Nexus Server
- Genome Nexus Seed Databas…
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Currently, gnomAD can only be browsed by Ensembl genes / transcripts. It should also support RefSeq genes / transcripts.
This only applies to gnomAD v3.1+. This requires VEP annotations with RefSeq…
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thanks a lot