Check for same imported allele (c.HGVS) imported in different builds but not linking
- Dominant language
- Python
- Stars
- 30
- Forks
- 3
- Avg merge
- 9h 28m
- Merged PRs (30d)
- 42
Description
Raised from SACGF/variantgrid_private#3472
> I think this happens when the same variant is imported against two genome builds but both genome builds do not lift over so therefore the variants aren't linked
**Detect / warn**
We should look for c.HGVS from different builds that don't link
* Find imported alleles that have any liftover failures
* Sort the c.HGVS, look for dupes
* If the dupes aren't linked, report it
We can start off doing this in a deployment check
If we find anything, we can fix it manually and report back here that it was done. If it happeneds heaps of times then maybe put somewhere on the classification web pages
**Search**
I think example was in search for SACGF/variantgrid_private#3472 - go get it.
> Show results for both alleles if a variant resolves to different alleles depending on import build.
We should search in imported allele info (same way as HGVS resolution tool does it)
Contributor guide
No contributing guide indexed for this repository
Assessment
This issue has not been assessed yet.