Man pages for linnykos/multiomicCCA
Tilted CCA
| compute_snns | Include SNN graphs to multiSVD |
| compute_synchrony | Compute the synchrony based on Tilted-CCA |
| consensus_pca | Computing Consensus PCA |
| construct_celltype_subsample | Construct cell-type subsamples |
| create_multiSVD | Create the object to initialize Tilted-CCA |
| create_SeuratDim | Create Seurat dimension reduction objects of Tilted-CCA |
| differential_expression | Compute the differential expression across each pair of cell... |
| dot-cca | Perform CCA |
| dot-compute_cca_aggregate_matrix | Helper function with the CCA function |
| dot-compute_distinct_score | Compute the distinct scores |
| dot-compute_prob_mat | Compute probability matrix |
| dot-compute_unnormalized_scores | Using the CCA solution, compute the score matrices. |
| dot-generate_adjaceny_mat | Simulate adjacency matrix |
| dot-project_vec2vec | Projection of vector onto another vector |
| dot-tiltedCCA_common_score | Main workhorse of dcca_factor |
| fine_tuning | Fine tune the common tilts, one for each latent dimension |
| form_metacells | Include meta-cell information to multiSVD |
| generate_random_orthogonal | Generate orthogonal matrices via Gaussian noise |
| generate_sbm_orthogonal | Generate orthogonal matrices correspond to an SBM |
| plot_alignment | Plot alignment of variables |
| plot_cell_enrichment | Plot cell enrichment |
| plot_clisi | Making the plot for local enrichment |
| plot_clisi_legend | Plot the cLISI legend |
| plot_heatmat | Heatmap of the data |
| plot_scores | Side-by-side plot of the canonical scores, colored by... |
| plot_scores_heatmap.dcca | Side-by-side plot of the canonical scores as heatmaps |
| plot_scores_heatmap.list | Side-by-side plot of the canonical scores as heatmaps |
| plot_summary | Plot summary of D-CCA |
| postprocess_cell_enrichment | Computing cell enrichments (generic) |
| postprocess_cell_enrichment.default | Computing cell enrichments for matrix object |
| postprocess_cell_enrichment.multiSVD | Computing cell enrichments for multiSVD object |
| postprocess_depvalue | Compute the negative log-10 p-values across all cell types |
| postprocess_marker_variables | Find the marker genes the separate one cell type from all... |
| postprocess_modality_alignment | Compute how aligned the common component for a feature is... |
| rotate_seurat_embeddings | Rotate embedding in a Seurat object |
| tiltedCCA | Tilted-CCA Factorization |
| tiltedCCA_decomposition | Tilted-CCA Decomposition |
