TMEformer Documentation

TMEformer is a Tumor Microenvironment (TME) extension of Geneformer, designed for modeling TME information in single-cell spatial transcriptomics data.

Note

This documentation covers the TME-specific modules added to TMEformer, including the TME Module and CLI Module modules.

Contents

Tutorials:

• Tutorials
  • ISP Simulation Analysis Tutorial
  • TME Composition ISP Analysis Tutorial
  • TME Rank ISP Analysis Tutorial
  • Gene Expression Prediction Model Preparation and Training Tutorial
  • Gene Expression ISP Analysis Tutorial
  • TME Composition ISP Analysis Tutorial (Gene Expression Prediction)
  • TME Rank ISP Analysis Tutorial (Gene Expression Prediction)

API Reference:

• API Reference
  • TME Module
  • CLI Module

Indices and tables

• Index

• Module Index

• Search Page