| add_empirical_pval_fdr |
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| add_extra_criterion |
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| alias_to_symbol_SCE |
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| combine_sender_receiver_de |
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| combine_sender_receiver_info_ic |
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| compare_normal_emp_pvals |
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| fix_frq_df |
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| geneinfo_alias_human |
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| geneinfo_alias_mouse |
Man page
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| generate_prioritization_tables |
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| generate_prioritization_tables_OLINK |
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| generate_prioritization_tables_condition_specific_celltypes_rece |
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| generate_prioritization_tables_condition_specific_celltypes_send |
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| generate_prioritization_tables_sampleAgnostic_multifactorial |
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| generate_prioritization_tables_tests |
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| get_DE_info |
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| get_DE_info_sampleAgnostic |
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| get_FDR_empirical |
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| get_FDR_empirical_plots |
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| get_FDR_empirical_plots_all |
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| get_abundance_info |
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| get_avg_pb_exprs |
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| get_empirical_pvals |
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| get_frac_exprs |
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| get_frac_exprs_sampleAgnostic |
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| get_ligand_activities_targets_DEgenes |
Man page
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| get_ligand_activities_targets_DEgenes_beta |
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| get_ligand_activities_targets_OLINK |
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| get_muscat_exprs_avg |
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| get_muscat_exprs_frac |
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| get_pseudobulk_logCPM_exprs |
Man page
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| get_top_n_lr_pairs |
Man page
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| infer_intercellular_regulatory_network |
Man page
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| ligand_target_matrix_test |
Man page
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| lr_target_prior_cor_inference |
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| make_DEgene_dotplot_pseudobulk |
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| make_DEgene_dotplot_pseudobulk_batch |
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| make_DEgene_dotplot_pseudobulk_reversed |
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| make_circos_group_comparison |
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| make_circos_one_group |
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| make_ggraph_ligand_target_links |
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| make_ggraph_signaling_path |
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| make_ligand_activity_plots |
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| make_ligand_activity_target_plot |
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| make_ligand_receptor_violin_plot |
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| make_lite_output |
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| make_lite_output_condition_specific |
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| make_lr_target_correlation_plot |
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| make_lr_target_prior_cor_heatmap |
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| make_lr_target_scatter_plot |
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| make_sample_lr_prod_activity_batch_plots |
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| make_sample_lr_prod_activity_plots |
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| make_sample_lr_prod_activity_plots_Omnipath |
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| make_sample_lr_prod_plots |
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| make_target_violin_plot |
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| makenames_SCE |
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| multi_nichenet_analysis |
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| multi_nichenet_analysis_sampleAgnostic |
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| p.adjust_empirical |
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| perform_muscat_de_analysis |
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| prioritize_condition_specific_receiver |
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| prioritize_condition_specific_sender |
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| process_abund_info |
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| process_abundance_expression_info |
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| process_geneset_data |
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| process_info_to_ic |
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| scale_quantile_adapted |
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| sce |
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| visualize_network |
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