Getting Started

Introduction
Setting Up CASSIA

Basic CASSIA Workflow

Fast Mode
Single Cluster Analysis
Batch Processing
Quality Scoring and Report Generation

Advanced CASSIA Workflow

Introduction to Optional Agents
Uncertainty Quantification
Annotation Boost Agent
Compare Cell Types
Subclustering Analysis
Annotation Boost Plus Agent
Retrieve Augmented Agent

Help

Troubleshooting

Resources

GitHub Repository
Research Paper
Comment Section

CASSIA v1.2.0

Comments

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