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Hi!
Our analysis and the design of Scout, for historical reasons, heavily rely on CADD. However, there are now several new in silico prediction tools available. The advantage of CADD is that …
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Annotate NMD-triggering/skipping nonsense variants through the VEP plugin:
http://www.ensembl.org/info/docs/tools/vep/script/vep_plugins.html#nmd
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When I was running ScanNeo2, several samples encountered errors during the VEP annotation process, specifically for the main task of SNVs. The following error occurred for all of them.
localrule ann…
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Hi ! where can I find gtex.db ?
thanks
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## Describe the issue
I encountered the same problem as shown in the figure when using the DownStream plugin (there is no such problem when using --hgvs). Following these three instructions, I update…
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Hi i am having this issue when running VEP
WARNING: Failed to instantiate plugin UTRannotator: No such file or directory at /root/.vep/Plugins/UTRannotator/UTRannotator.pm line 54.
i still have an o…
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Given that VEP is a tool for annotating variants with transcript-level data, I struggle to think of a scenario in which you *wouldn't* want the dbNSFP annotations to be properly split out and matched …
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### Description of the bug
```bash
ERROR ~ Error executing process > 'NFCORE_RAREDISEASE:RAREDISEASE:ANNOTATE_STRUCTURAL_VARIANTS:ENSEMBLVEP_SV (justhusky)'
Caused by:
Process `NFCORE_RAREDI…
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Contribution guide can be found [here](https://github.com/Ensembl/ensembl/blob/master/CONTRIBUTING.md).
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When using VEP we always provide the "--safe" option, to ensure that an error is reported if a plugin fails.
However this seems to have stopped working, VEP reports a succesful run while a plugin (a …