TranscriptVersion page - show whether transcript sequence is different than pasted exons
- Dominant language
- Python
- Stars
- 31
- Forks
- 3
- Avg merge
- 9h 22m
- Merged PRs (30d)
- 40
Description
For instance I think NM_022356.3 is different, as a c. dup is converted to a delins on 1 genome build but not the other
Probably the easiest way to do this is to add some methods onto:
```
genes.hgvs.biocommons_hgvs.data_provider.DjangoTranscriptDataProvider
```
to test eg
```
from genes.models import GenomeBuild, TranscriptVersion
tv = TranscriptVersion.get("NM_022356.3", GenomeBuild.grch38())
tv.sequence_info.sequence
```
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Research direction
Start with genes.hgvs.biocommons_hgvs.data_provider.DjangoTranscriptDataProvider and inspect how TranscriptVersion.get("NM_022356.3", GenomeBuild.grch38()).sequence_info.sequence is exposed to the TranscriptVersion page. Compare the transcript sequence with the pasted exons across genome builds, using NM_022356.3 as the example. Done means the page clearly shows whether the sequences differ.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- backend
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100