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cancervariants / fusion-curation

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automatically populate strand for templated sequence #320

Open katiestahl opened 2 weeks ago

katiestahl commented 2 weeks ago

Feature description

I imagine there's a way to be able to get the strand from the chromosome maybe? We should look into autopopulating the strand like we do in GeneAutocomplete. There may potentially be work for fusor here as well, so I will create a ticket for that and link it. There may be potential for fusor work needed here as well

https://github.com/cancervariants/fusion-curation/pull/314#discussion_r1731094818

If it doesn't make sense to get the strand based on chromosome or if this isn't possible, please close this issue.

Use case

As a user, I would like to not have to select the strand for a templated sequence, if it's something fusion-curation can retrieve from UTA for me.

Proposed solution

see if we can use chromosome to get the strand

Alternatives considered

No response

Implementation details

No response

Potential Impact

No response

Additional context

No response

Contribution

Yes, I can create a PR for this feature.

jsstevenson commented 2 weeks ago

Probably not feasible/meaningful -- the idea of this component is that it represents a case where a lil stray chunk of DNA gets hooked onto a molecule. Strandedness matters here as an indication of the direction that the chunk is hooked into (forward or backward), there's no inherent correct answer except for what was observed in the particular fusion. Happy to be corrected, though.