WaveFactor Documentation

Work in Progress

This documentation is a work in progress and subject to further improvements.

WaveFactor (formerly WaviFM) is a Bayesian factor modeling framework for spatial transcriptomics that explicitly models spatial length scales by performing Coordinate Ascent Variational Inference (CAVI) directly on 2D Discrete Wavelet Transform (DWT) coefficients.

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📚 Contents

• Installation Guide: How to set up an isolated environment and install WaveFactor.
• Data Input & Output: Expected input grid formats, preprocessing tips, and model outputs.
• Getting Started Example: How to run the quick self-contained simulation.

🤖 LLM Context: Working with an AI assistant? Use the raw single-file documentation at llms.md.