Man pages for LucaGiudice/Esearch3D
Leveraging gene expression and chromatin architecture to predict intergenic enhancers
| combine_netWprop | Combine network data with propagation values |
| complete_m | Harmonizes the matrix of cell expression profiles with... |
| create_net2plot | Create an igraph object of the chromatin interaction network... |
| diag_prof | Convert matrix to diagonal matrix of row elements |
| download_genes_annotation | Downloads the genes annotations for human and mouse |
| enhancer_classifier | Enhancer classifier based on centrality measures and... |
| explain_classifier | Explain the Enhancer classifier |
| firstup | Make the first letter a capital letter |
| fun2 | Assign colours to node types in the igraph object |
| get_centr_info | Get centrality measures about nodes |
| get_contrib_propXdest | Given the target nodes of the propagation, it provides the... |
| get_contrib_propXorig | Given the seed nodes of the propagation, it provides the... |
| get_dist_m | Determines the shortest distances from all the genes to the... |
| get_single_prop_data | Supportive function to infer the networks and the profiles... |
| merge_prop_info | Merge propagation results with meta information |
| range01 | Zero - one standardization |
| rank_scale | Maximum-based ranking normalization |
| rwr_OVprop | Network based propagation with random walk for the multi-gene... |
| rwr_SGprop | Single gene network based propagation based on random walk... |
| start_GUI | Starts a shiny gui for the visualization of propagation... |
| toolkitf | Connects network nodes to metainformation |
| tuning_prop_vars | Get the optimal isolation parameters for the multi-gene... |
