Function reference • CrossTalkeR

All functions

LRObj-class lrbject: Run and Generate all LR Downstream analysis

add_node_type(): Adding genetype to the gene names to distinguish biological function

analise_LR(): Run all LR Downstream analysis

comparative_med(): Delta betweenness the most interactive gene (ligand or receptor)

comparative_pagerank(): Ranking the most interactive gene (ligand or receptor)

create_diff_table1(): Read the lrobject and generate the comparative tables

enrich(): Ranking the most interactive gene (ligand or receptor)

fisher_test_cci(): Evaluate Differences in the edge proportion

generate_report(): Run all LR Downstream analysis

kegg_annotation(): Annotate Exclusive LR pairs (ligand or receptor)

make_report(): Generate a report for given LRObj

plot_cci(): Plot Cell Cell Interaction

plot_deregulated_pathways(): This function is a proxy to the PCA plot in comparative conditions

plot_graph_sankey_tf(): This function creates a sankey plot for a selected gene including transcription factor interactions.

plot_pca(): This function is a proxy to the PCA plot

plot_pca_LR_comparative(): This function is a proxy to the PCA plot in comparative conditions

plot_sankey(): This function selected genes sankey plot

ranking(): Ranking the most interactive gene (ligand or receptor)

ranking_net(): Network Ranking method

read_lr_single_condition(): Read single condition tables

set_coords(): This function assigns coordinates in the sankey plots for the genes on the dataframe