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Jupyter Scatter Tutorial

:wave: Welcome! Here you will find the notebooks for the Jupyter Scatter tutorial, first presented at SciPy 2023. These notebooks offer an in-depth guide to interactive scatter plot visualizations using jupyter-scatter. Specifically, the tutorial covers

1. How to get started with Jupyter Scatter and visualize medium to large-scale datasets as interactive scatter plots.
2. How to compose and link/synchronize multiple scatter plots
3. How to integrate Jupyter Scatter with other widgets to build bespoke interfaces for:
   1. Exploring LLM-based sentence embeddings
   2. Comparing multiple embedding method of the Fashion MNIST dataset
   3. Browsing genomic data with HiGlass and loci embeddings
   4. Comparing a pair of single-cell embeddings by their label abundance differences
4. How to use the tooltip feature, introduced in v0.15.0 (Added after the SciPy 2023):
   1. Tooltip with text previews for the LLM-based sentence embeddings
   2. Tooltip with image previews for the Fashion MNIST embedding
   3. Tooltip for a single-cell embededding
   4. Tooltip with audio previews for Google's Magenta Nsynth dataset
5. How to add features to Jupyter Scatter composition with other Jupyter Widgets (Added after the SciPy 2023):
   1. Search

Note

You can find my SciPy '23 talk on YouTube and the accompanying slides at Speaker Deck.

Run the Tutorial

Online

If you have a Google/Gmail account, you can run this tutorial from your browser using Colab: .

[!IMPORTANT] You need to manually install Jupyter Scatter when running the notebooks in Google Colab via !pip install jupyter-scatter. Make sure to not install jscatter as that is a different package.

Locally

To run the notebook locally we recommend setting up a custom environment using hatch as follows:

hatch shell

Finally, you can now run the notebooks with:

jupyterlab