MATISSE ExplorerMulti-modal Analysis Toolkit for Interactive Spatial Transcriptomics & Systems Exploration

Explore and analyze your spatial transcriptomics data with powerful interactive tools

🗺️

Spatial Visualization

View tissue images with data points, zoom and pan seamlessly, switch between spatial and embedding projections

🎨

Color-code your data by any feature - cell types, gene expression, or custom signatures

🔍

Build complex subset queries with AND/OR logic, lasso selections, and saved subsets

📊

Explore relationships with configurable scatter plots and direct lasso selection on plots

Section	Description
Explorer	Map viewer, features, signatures, navigation
Subsetting	Subsetting, lasso selection, saved subsets
Visualization	Color mapping, layer settings, image adjustments, scatter plots
Analysis	DEG analysis and platform-exclusive features
Data Export	Exporting data to CSV format
Settings	Theme and preferences
Tutorials	Step-by-step workflow guides
Reference	Glossary, FAQ