Man pages for FloWuenne/scFunctions
Functions for single cell data analysis
| auc_thresh_kmeans | This function takes the regulon AUC values and determines... |
| auc_thresh_kmeans_nextflow | This function is to analyze the nextflow implementation... |
| binarize_regulons | Uses AUC thresholds to binarize regulon activity. Binary... |
| binarize_regulons_nextflow | This function is to analyze the nextflow implementation... |
| calc_csi_module_activity | Calculate CSI module activity over all cell types |
| calculate_csi | Calculates CSI values for all regulon pairs |
| calculate_rrs | Calculates Regulon specificity score (RSS) from binary... |
| DE_Seurat | Function to perform differential expression analysis for all... |
| export_data_from_seurat | Function to export data tables from Seurat object. |
| export_seurat_to_shiny_scCluster | Exports data from a Seurat object to the formats required by... |
| extract_data_for_shiny_clustering | Function to perform differential expression analysis for all... |
| impute_seurat_MAGIC | A function to perform imputation on a Seurat object using... |
| perform_fgsea | A function that will perform fgsea analysis on all cells in a... |
| plot_bin_regulon_UMAP | Calculates Regulon specificity score (RSS) from binary... |
| plot_csi_modules | Plots a heatmap for the connection specificty indices for all... |
| plot_rrs_ranking | Calculates Regulon specificity score (RSS) from binary... |
| prepare_clustering_for_shiny | Function to prepare as RDS object for... |
| summarize_cell_types | Function to summarize and analyze the number of cells and... |
