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Description
[Analysing the structure of pathways and its influence on the interpretation of biomedical datasets](https://www.biorxiv.org/content/early/2018/05/30/333492)
- A Reactome only study
[ComPath: An ecosystem for exploring, analyzing, and curating pathway
databases](https://www.biorxiv.org/content/biorxiv/early/2018/06/21/353235.full.pdf)
- Use the [overlap coefficient](https://en.wikipedia.org/wiki/Overlap_coefficient)
- Compares WikiPathways, Reactome and KEGG
Contributor guide
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 reading the two linked studies, including the Reactome-only analysis and the ComPath comparison of WikiPathways, Reactome, and KEGG. Investigate how the overlap coefficient could support the proposed pathway-resource comparison; no files, tests, or entry points are named, so the completion criteria need to be clarified.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- r
- Domain
- bioinformatics
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 20/100