Function reference
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TM_CT() - Function to calculate cross-talks between pathways of different gene communities
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comparing_results_network() - Visual representation of multiple cross-talk analyses.
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cross_talk() - Function to caluclate cross-talk
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ct_heatmap() - Function to plot the heatmap of cross-talk results
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edge_weights() - Function for the assignment of edges weights in order to better visualize the communities
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funct_rel_heatmap() - Function to obtain a detailed visualization of specific results of functional relevance analysis
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gene_functional_relevance() - Function to calculate gene functional relevance
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gene_set_cc() - Function to calculate sub-components pathway score
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gs_cross_talk() - Cross-talks between gene-sets
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pathway_data() - Returns filtered msigdb geneset in a format compatible with cross-talks calculations
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pathway_sim_comm() - Pathway similarity and communities
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pathway_similarity() - Pathway similarity
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perm_link() - Function to caluclate permutation of the number of links between two gene sets
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plot_functional_relevance() - Function to plot functional relevance results
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plot_network_CT() - Plot cross-talk results as a network
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preparing_DEG_list() - Function to prepare the input for `cluster_communication()` by using DEG analysis results data
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preparing_expr_list() - Function to prepare cluster list for `cluster_communication()`
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preparing_gs_list() - Build list for cross-talk calculation from database list
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preparing_msigdb_list() - Build list for cross-talk calculation from MSigDB database list
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round() - Scientific approximation