AlexsLemonade / AlexsLemonade/sc-data-integration

Create a menu of scpca projects to be considered for integration

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Description

As we are evaluating integration methods and testing subsets of datasets, it would be helpful to see the exact breakdown of ScPCA projects and how much of each disease, 10X platform, etc. are included. Right now for integration we plan to approach integrating only data that are from the same project, disease type, sequencing unit, and 10X platform so we want to see what that breakdown looks like. From there we may pick a few projects to test the integration workflow on, removing the python methods before testing.

We can use https://github.com/AlexsLemonade/sc-data-integration/issues/3#issuecomment-1130239566 as a reference for building this table.

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Research direction

Review the referenced issue comment for the example table and identify the available ScPCA project metadata. Build a menu showing the breakdown by project, disease type, sequencing unit, and 10X platform, with enough detail to support selecting integration test subsets and excluding the Python methods before testing.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
data
Issue type
Feature
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
35/100

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