Welcome to ZOOM’s tutorial!

zoom is a Python-based integrative framework for linking macroscopic and mesoscopic spatial brain phenotypes (SBPs) with microscopic molecular, cellular information. ZOOM extends conventional imaging transcriptomics paradigm to further identify cell subpopulations or cellular modules associated with SBPs by utilizing information derived from single-cell RNA sequencing (scRNA-seq) dataset.

Fig. 1 Overview of ZOOM method

Table of Contents

• Installation Guide
  • Installation requirements
  • Dependencies
  • Installation
• User Guide
  • Prepare input data
  • Imaging-transcriptomics
  • Single-cell enrichment score of SBP-relevant gene set
• What’s new
  • 0.0.1 (December 20, 2025)
• API Documents
  • zoom.core - Core Class
  • zoom.data_loader - Data Loader
  • zoom.prepare - Prepare Input Data
  • zoom.pls_tool - Imaging Transcriptomics
  • zoom.sc_tool - Single Cell Scoring
• References

Developer

• Shuyang Nie, Zhejiang University, 22419029@zju.edu.cn.

License

The zoom source code is available under the MIT License.

Support

If you have any problem or identify any bug in the source code, please send the authors an email or create a new issue on GitHub.