A platform for automatic cell type annotation
Fast and accurate cell type prediction at scale using our knowledgebase, proprietary algorithms and user-friendly interface.
High-quality in-built reference
Marker based annotation
Granular cell type predictions
Cross-species search
A platform for automatic cell type annotation
Fast and accurate cell type prediction at scale using our knowledgebase, proprietary algorithms and user-friendly interface.
Cluster Annotation
Upload cluster-specific gene lists and get cell type predictions using our proprietary rank-based comparison against all signatures in our database.
Annotate clusters in seconds
Matching signatures & publications
Broad & granular predictions
REST API access available
Input:
Cluster
Gene
avg_log2FC
pct.1
1
CCR7
0.985
0.699
1
SELL
0.858
0.801
1
TCF7
0.844
0.673
...
↓
Result:
Single-Cell & Spatial Annotation
Single-Cell Annotation
Annotate individual cells without clustering requirements using direct cell-to-signature matching.
Input: Raw or processed scRNA-seq data
Method: No clustering step required
Types: Broad and granular classifications
Capacity: Up to 500K cells per analysis
Spatial Deconvolution
Assign cell types in spatial RNA-seq with location-specific analysis using our comprehensive reference database.
Platforms: Visium, Visium HD, Xenium, Custom
Output: Per-spot cell type assignments
Precision: Up to 3 cell types per spot
Cross-species analysis: Human, mouse, and other species
Specialized Tools
Bulk Enrichment
Analyze cell type abundance changes in bulk RNA-seq datasets using gene expression patterns and cell type specificity scores.
Input: Gene lists with fold changes or expression values
Method: Gene specificity analysis using CellKb signatures
Results: Cell type enrichment and depletion detection
Consensus Signatures
Access reliable cell type marker genes validated across multiple independent studies and datasets.
Source: 100K+ cell type signatures from published studies
Method: Cell type specificity analysis for all genes
Context: Species, tissue, disease specific
Biomarker Discovery
Compare cell type signatures across conditions to identify disease-specific biomarkers and therapeutic targets.
Method: Comparative signature analysis
Focus: Disease and normal state biomarkers
Results: Top 10 ranked markers with significance
Included with All Methods
Prediction Scores
Canonical Markers
Statistical Tests