Man pages for scregclust
Reconstructing the Regulatory Programs of Target Genes in scRNA-Seq Data
| alloc_array | Allocate 3d-array and fill with matrix along first dimension |
| available_results | Extract final configurations into a data frame |
| cluster_overlap | Create a table of module overlap for two clusterings |
| coef_nnls | Compute NNLS coefficients |
| coef_ols | Compute OLS coefficients |
| coef_ridge | Compute ridge regression coefficients |
| compute_adjusted_rand_index | Compute Hubert's and Arabie's Adjusted Rand index |
| compute_rand_index | Compute the Rand index |
| coop_lasso | ADMM algorithm for solving the group-penalized least squares... |
| count_table | Format count table nicely |
| fast_cor | Fast computation of correlation |
| find_module_sizes | Determine module sizes |
| get_avg_num_regulators | Get the average number of active regulators per module |
| get_num_final_configs | Return the number of final configurations |
| get_rand_indices | Compute Rand indices |
| get_regulator_list | Return list of regulator genes |
| get_target_gene_modules | Extract target gene modules for given penalization parameters |
| jaccard_indicator | Compute indicator matrix of pairwise distances smaller than... |
| jaccard_indicator_comp | Perform the computations for thresholded Jaccard distance |
| kmeanspp | Perform the k-means++ algorithm |
| kmeanspp_init | Determine initial centers for the kmeans++ algorithm |
| plot_module_count_helper | Plot average silhouette scores and average predictive R^2 |
| plot_regulator_network | Plotting the regulatory table from scregclust as a directed... |
| plot_silhouettes | Plot individual silhouette scores |
| progstr | Quick'n'dirty progress bar |
| remove_empty_modules | Remove empty modules |
| reset_array | Reset input 3d-array by filling matrix along first dimension |
| scregclust | Uncover gene modules and their regulatory programs from... |
| scregclust_format | Package data before clustering |
| scregclust-package | scregclust: Reconstructing the Regulatory Programs of Target... |
| split_sample | Split Sample |
