Man pages for kieranrcampbell/embeddr
Laplacian eigenmaps & principal curves for pseudotemporal ordering of single-cell RNA-seq data
| calculate_metrics | Calculate metrics through pseudotime |
| cluster_embedding | Cluster the resulting embedding |
| compare_models | Perform likelihood ratio test |
| embeddr | Laplacian eigenmaps embedding of single-cell RNA-seq data. |
| embeddr-package | Pseudotemporal ordering of single-cell RNA-seq data using... |
| fit_null_model | Fit the null pseudotime model |
| fit_pseudotime | Fit the pseudotime curve |
| fit_pseudotime_model | Fit the gene expression profile in pseudotime |
| fit_pseudotime_models | Generate a list of pseudotime models corresponding to ALL... |
| gene_pseudotime_test | Test a single gene as a function of pseudotime |
| laplacian_eigenmap | Laplacian eigenmaps |
| plot_embedding | Plot the cells in the embedding |
| plot_graph | Plot the nearest neighbour graph in the embedding |
| plot_in_pseudotime | Plot cells in pseudotime |
| plot_pseudotime_density | Plot density of cells in pseudotime |
| plot_pseudotime_metrics | Plot metrics in pseudotime |
| plot_pseudotime_model | Plot the fit in pseudotime |
| predicted_expression | Create a predicted expression matrix |
| pseudotime | Retrieve the pseudotime assignment from sce |
| pseudotime_test | Pseudotime gene testing |
| remove_pseudotime | removes the pseudotime and low dimensional trajectory |
| reverse_pseudotime | Reverse pseudotime |
| weighted_graph | Construct a weighted graph adjacency matrix |
