AlexsLemonade / AlexsLemonade/refinebio
Define rules for single experiments (i.e., not SuperSeries) with multiple platforms
- Dominant language
- Python
- Stars
- 135
- Forks
- 21
- PR merge metrics
- No merged PRs in 30d
Description
### Context
We found a single experiment (not a SuperSeries) that had multiple platforms during discussion here https://github.com/AlexsLemonade/refinebio/issues/89#issuecomment-382750563: [`E-GEOD-9077`](https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-9077/)
### Problem or idea
We'll need to define rules for handling this, as apparently it happens!
### Solution or next step
One idea that comes to mind: for any experiment that has multiple platforms and is not a SuperSeries, ignore it. But we'll need to keep in mind that there will be "paired" Affymetrix `HGU133A` and `HGU133B` (see: #144), for example. We might tackle this around the same time as #145.
Contributor guide
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Research direction
Start by reviewing the discussion linked from #89 and the related issues #144 and #145, then inspect how experiments and SuperSeries are currently distinguished. Done means agreeing on explicit handling rules for single experiments with multiple platforms, including the paired HGU133A and HGU133B case, and implementing or documenting those rules as appropriate.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- data
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100