Package index • CrossTalkeR

All functions

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

analise_LR(): Run all LR Downstream analysis

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

generate_report(): Run all LR Downstream analysis

make_report(): Generate a report for given LRObj

new_plot_cci(): Plot Cell Cell Interaction

plot_bar_rankings(): This function generates the barplot for a given network ranking on the CGI level. Further, the genes can be filtered by selected gene types to filter the plot.

plot_bar_rankings_cci(): This function generates the barplot for a given network ranking on the CCI level

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

read_lr_single_condition(): Read single condition tables

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