Man pages for CAESAR.Suite
CAESAR: a Cross-Technology and Cross-Resolution Framework for Spatial Omics Annotation
| acc | Calculate Accuracy of Predicted Cell Types |
| add.gene.embedding | Add Gene Embedding to Seurat Object |
| annotation_mat | Annotate Cells Using Distance Matrix and Marker Frequencies |
| auc | Calculate Area Under the Curve (AUC) for Pathway Scores |
| CAESAR.annotation | Perform Cell Annotation Using CAESAR with Confidence and... |
| CAESAR.coembedding | Compute Co-embedding Using CAESAR |
| CAESAR.coembedding.image | Compute Co-embedding with Image Information Using CAESAR |
| CAESAR.CTDEP | Test Cell Type Differentially Enriched Pathways |
| CAESAR.enrich.pathway | Test whether pathways are enriched |
| CAESAR.enrich.score | Calculate Spot Level Enrichment Scores for Pathways Using... |
| CAESAR.RUV | Perform Batch Correction and Integration with CAESAR Using... |
| Cauchy.Combination | Combine p-values Using the Cauchy Combination Method |
| cellembedding_image_matrix | Compute Spatial-Aware Cell Embeddings with Image Information |
| cellembedding_image_seurat | Compute Spatial-Aware Cell Embeddings with Image Information |
| cellembedding_matrix | Compute Spatial-Aware Cell Embeddings |
| cellembedding_seurat | Perform CAESAR embedding of Cells Using FAST with Spatial... |
| CoUMAP | Co-embedding UMAP for Genes and Cells in a Seurat Object |
| CoUMAP.plot | Plot Co-embedding UMAP for Genes and Cells |
| find.sig.genes | Identify Signature Genes for Each Cell Type |
| getneighborhood_fastcpp | getneighborhood_fast |
| Human_HK_genes | Human housekeeping genes database |
| Intsg | Integrate Signature Genes Across Datasets |
| markerList2mat | Convert Marker List to a Weighted Matrix |
| marker.select | Select Marker Genes from a signature gene list Based on... |
| Mouse_HK_genes | Mouse housekeeping genes database |
| SigScore | Calculate Signature Score for Cell Clusters |
| toydata | A toy dataset to run examples |
