--- a +++ b/NAMESPACE @@ -0,0 +1,71 @@ +# Generated by roxygen2: do not edit by hand + +S3method(print,RWRM_Results) +export(combine_layers) +export(get_graph_stats) +export(get_grn) +export(get_interaction_from_ORA) +export(get_interaction_from_correlation) +export(get_interaction_from_database) +export(plot_rwr_subnetwork) +export(random_walk_restart) +export(rwr_find_closest_type) +export(rwr_find_seeds_between_attributes) +export(summary_plot_rwr_attributes) +import(GO.db) +import(ggplot2) +importFrom(AnnotationDbi,keytypes) +importFrom(Matrix,Diagonal) +importFrom(Matrix,bdiag) +importFrom(Matrix,colSums) +importFrom(Matrix,t) +importFrom(dplyr,across) +importFrom(dplyr,all_of) +importFrom(dplyr,everything) +importFrom(dplyr,filter) +importFrom(dplyr,group_by) +importFrom(dplyr,left_join) +importFrom(dplyr,mutate) +importFrom(dplyr,n) +importFrom(dplyr,pull) +importFrom(dplyr,select) +importFrom(dplyr,summarise) +importFrom(dplyr,top_n) +importFrom(gprofiler2,gconvert) +importFrom(gprofiler2,gost) +importFrom(igraph,E) +importFrom(igraph,V) +importFrom(igraph,add_vertices) +importFrom(igraph,adjacent_vertices) +importFrom(igraph,as.undirected) +importFrom(igraph,as_adjacency_matrix) +importFrom(igraph,degree) +importFrom(igraph,delete_vertex_attr) +importFrom(igraph,delete_vertices) +importFrom(igraph,ecount) +importFrom(igraph,edge_density) +importFrom(igraph,graph_from_adjacency_matrix) +importFrom(igraph,graph_from_biadjacency_matrix) +importFrom(igraph,graph_from_data_frame) +importFrom(igraph,induced_subgraph) +importFrom(igraph,is_weighted) +importFrom(igraph,set_vertex_attr) +importFrom(igraph,simplify) +importFrom(igraph,union) +importFrom(igraph,vcount) +importFrom(igraph,vertex_attr) +importFrom(magrittr,"%>%") +importFrom(methods,is) +importFrom(minet,aracne) +importFrom(minet,build.mim) +importFrom(purrr,imap_dfr) +importFrom(purrr,is_empty) +importFrom(purrr,map) +importFrom(purrr,map2) +importFrom(purrr,map_dfr) +importFrom(purrr,reduce) +importFrom(purrr,set_names) +importFrom(stats,cor) +importFrom(stats,na.omit) +importFrom(tibble,rownames_to_column) +importFrom(tidyr,pivot_longer)