scverse / scverse/spatialdata

New easier intro notebooks

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docs 📜
Dominant language
Python
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394
Forks
95
Avg merge
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Merged PRs (30d)
7

Description

We have received feedback that our intro notebooks "Use SpatialData with your data":

  1. I. Use SpatialData with your data: the SpatialData object
  2. II. Use SpatialData with your data: SpatialElements and tables
    are too tech heavy.

We should consider moving them to a section of notebooks targeting methods developers and make a slimmer version of them (maybe a single intro notebook?) using a biological dataset.

Any of the 5 datasets described here: https://github.com/scverse/spatialdata/issues/700#issuecomment-2326790050 could be used.

Contributor guide

Open the contributing guide

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start by reading the existing models1.html and models2.html notebooks and the five dataset options described in issue #700. Decide how the notebooks should be split or simplified for biological data, then confirm that the resulting intro material is less technical and the methods-developer material is separated.

Written by the indexing model from the issue text.

Assessment

Tech stack
jupyter-notebook, python
Domain
documentation
Issue type
Documentation
Difficulty
5/5
Estimated time
Over a week
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
35/100

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