Skip to content

tutorials

Directory actions

More options

Directory actions

More options

Latest commit

 

History

History

tutorials

README.md

HEST-1k Tutorials

Welcome to the HEST-1k tutorial repository! This set of tutorials provides a step-by-step guide to working with HEST-1k and the HEST-Library.

Tutorials

1. Downloading HEST-1k.ipynb

This notebook guides you through downloading the HEST-1k dataset using HuggingFace. It includes details on dataset structure and requirements.

2. Interacting with HEST-1k.ipynb

Learn how to load and explore HEST-1k data. This notebook introduces tools for inspecting data contents, exploring sample images, and performing initial analyses to understand dataset attributes.

3. Assembling HEST Data.ipynb

This tutorial provides instructions on assembling HEST data from raw files into a structured format ready for analysis.

4. Running HEST Benchmark.ipynb

Run benchmarks on the HEST-1k dataset.

5. Batch-effect visualization.ipynb

This notebook is dedicated to visualizing batch effects within the HEST-1k dataset. It covers methods to identify, understand, and mitigate batch effects.

Contributions

External contributions are welcome! If you have ideas for improving these tutorials or would like to contribute, please feel free to reach out to gjaume@bwh.harvard.edu (cc: homedoucetpaul@gmail.com).

If you encounter any issues, please check the GitHub Issues section, as other users might have already faced similar challenges.