Spatially Aware Cell-Cell Interaction Analysis
![[R logo]](../../../doc/html/Rlogo.svg)
![[Up]](../../../doc/html/left.jpg)
![[Top]](../../../doc/html/up.jpg)
Documentation for package ‘SpaCCI’ version 1.0.4
Help Pages
| DB_dataframe | Test data for SpaCCI |
| Find_regional_IDs | Find the spatial neighborhood Spot IDs |
| GetShuffledCT | Perform a Deranged Shuffle of Cell Types |
| Global_Permutations | Perform Global Permutations |
| Local_Regional_Permutations | Perform Local and Regional Permutations |
| LR_database | Identify Possible Ligand-Receptor Pairs for Cell-Cell Communication |
| plot_localized | Plot Localized Hotspot Pattern |
| plot_localized_Seurat | Plot Localized Hotspot Pattern on Seurat Object |
| plot_SpaCCI_chordDiagram | Plot SpaCCI Results on Chord Diagram |
| plot_SpaCCI_heatmap | Plot SpaCCI Results on the heatmap Visualize inferred significant cell-cell interactions using a heatmap |
| plot_SpaCCI_local | Plot SpaCCI Localized Interaction Results |
| plot_SpaCCI_local_Strength | Plot SpaCCI Localized Interaction Strength Results |
| plot_Strength_localized | Plot Localized Hotspot Strength Pattern |
| plot_Strength_Seurat | Plot Localized Hotspot Strength Pattern on Seurat Object |
| possible_L_R_pairs_cellchat | CellChat Database: Identify Possible Ligand-Receptor Pairs for Cell-Cell Communication |
| possible_L_R_pairs_Cellinker | Identify Possible Ligand-Receptor Pairs for Cell-Cell Communication |
| possible_L_R_pairs_cellphoneDB | Identify Possible Ligand-Receptor Pairs for Cell-Cell Communication |
| possible_L_R_pairs_connectome | Identify Possible Ligand-Receptor Pairs for Cell-Cell Communication |
| possible_L_R_pairs_ICELLNET | Identify Possible Ligand-Receptor Pairs for Cell-Cell Communication |
| random_region | Select Closest Spatial IDs to a Center Point: this is used for permutation |
| result_global | result_global data for SpaCCI |
| result_local | result_local data and spatial coordinates for SpaCCI Local Regional Data |
| result_local_spatial_coords_df | Local Spatial Coordinates Data Frame |
| result_regional | result_regional data for SpaCCI |
| run_SpaCCI | Run SpaCCI Analysis |
| scPalette | Generate a Color Palette |
| self_identified_LR | Identify Possible Ligand-Receptor Pairs for Cell-Cell Communication |
| SpaCCI_global | Infer Cell-Cell Interactions on a Global Scale |
| SpaCCI_local | Infer Cell-Cell Interactions on a Local Scale |
| SpaCCI_region | Infer Cell-Cell Interactions in a Specified Region |
| test_data | Test data for SpaCCI |