Every CyteType report is structured around the same set of sections. Each answers a specific question your biology team will ask when reviewing annotations.
Use this page as a map, then open the module pages for deeper guidance on what to look for and when to act.
Report modules
- Ontology-anchored annotation — Cell Ontology terms, confidence, and label match
- Functional state resolution — Activation, exhaustion, and other programs beyond cell type
- Coarse lineage map — High-level lineage grouping before subtypes
- Marker-level evidence — Supporting, missing, and unexpected genes
- Confidence and heterogeneity QC — Certainty and mixed-cluster signals
- Multi-expert synthesis — Reviewer agreement and alternatives
- Study-aware context — How your study framing shapes labels
- Ranked pathway signals — GO and WikiPathways enrichment
- Linked citations trail — PubMed-backed gene claims
- Decision traceability — Candidate funnel and rejection reasons
- Interactive Cluster Copilot — Ask questions grounded in the cluster data
- Audit-ready export — Table export for downstream and regulatory use
💡 Tip: Start with ontology terms and confidence, then use marker evidence and decision traceability when a call looks surprising.
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