WormBase / WormBase/ACKnowledge
Add entities (e.g., genes) linked to another type of entities (e.g., alleles) extracted by the pipeline
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- Dominant language
- JavaScript
- Stars
- 3
- Forks
- 1
- PR merge metrics
- No merged PRs in 30d
Description
- For example, genes that do not pass the TFIDF threshold should be added if one of their variations is extracted
- We could add also species - strains links but we need to test this feature
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First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by locating the pipeline stage that applies the TFIDF threshold and creates entity links. Check how extracted variations and their parent entities are represented, using the gene/variation example as the initial case. Clarify whether species/strain links are also in scope and define tests for linked entities that would otherwise miss the threshold.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- javascript
- Domain
- data-engineering
- Issue type
- Feature
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100