Man pages for b-coli/ICITools
R Implementation of Tools for Calculating the Index of Cell Identity
| bin_expression_data | Compute bins for expression data |
| compute_ici_for_cell | Compute ici score for all cell types for a given cell's... |
| compute_ici_pval | Compute p-values for a single expression/cell type profile... |
| compute_ici_score_for_cell_type | Compute ICI score for a given cell type (Internal) |
| compute_ici_scores | Compute ICI scores for a set of cells |
| compute_mean_expr | Comptue mean expression for an 'expression_data' object |
| compute_spec | Compute Specification Score |
| compute_spec_table | Compute specification table for cell-type expression data |
| efroni_bin | Optimize the selection of bin size for defining two... |
| efroni_get_background_bin | Find the background bin in an expression vector |
| efroni_get_binsizes | Get binsize range for optimization |
| efroni_mean | Compute mean expression for each cell type (Efroni method) |
| extract_signal_from_info_data | Extract mean, maximimum ICI signal per cell per information... |
| extract_var_from_info_data | Extract variation between information levels for all cells... |
| find_ici_markers | Find Markers for ICI score computation |
| gather_information_level_data | Find ICI scores over a range of information levels |
| melted_to_mat | Convert melted data.frame (or tibble) to matrix |
| optimize_information_level | Attempt to optimize information level |
| test_birnbaum | Toy dataset adapted from Birnbaum, et al., 2011 |
| test_ici | Random toy dataset simulating cell profiles |
| test_spec | Random toy dataset simulating marker loci |
