API for biomedbigdata/SPONGE
Sparse Partial Correlations On Gene Expression
| Global functions | |
|---|---|
| Random_spongEffects | Man page Source code |
| build_classifier_central_genes | Man page Source code |
| calibrate_model | Man page Source code |
| ceRNA_interactions | Man page |
| checkLambda | Source code |
| check_and_convert_expression_data | Man page Source code |
| compute_null_model | Source code |
| compute_p_values | Source code |
| compute_pcor | Source code |
| define_modules | Man page Source code |
| determine_cutoffs_for_null_model_partitioning | Source code |
| dtcomb | Source code |
| enrichment_modules | Man page Source code |
| ensembl.df | Man page |
| filter_ceRNA_network | Man page Source code |
| fn_OE_module | Man page Source code |
| fn_RF_classifier | Man page Source code |
| fn_combined_centrality | Man page Source code |
| fn_discretize_spongeffects | Man page Source code |
| fn_elasticnet | Man page Source code |
| fn_exact_match_summary | Man page |
| fn_filter_network | Man page Source code |
| fn_gene_miRNA_F_test | Man page Source code |
| fn_get_model_coef | Man page Source code |
| fn_get_rss | Man page Source code |
| fn_get_semi_random_OE | Man page Source code |
| fn_get_shared_miRNAs | Man page Source code |
| fn_weighted_degree | Man page Source code |
| gene_expr | Man page |
| genes_pairwise_combinations | Man page Source code |
| get.q | Source code |
| get_central_modules | Man page Source code |
| isplitDT2 | Source code |
| mir_expr | Man page |
| mir_interactions | Man page |
| mircode_ensg | Man page |
| mircode_symbol | Man page |
| plot_accuracy_sensitivity_specificity | Man page Source code |
| plot_confusion_matrices | Man page Source code |
| plot_density_scores | Man page Source code |
| plot_heatmaps | Man page Source code |
| plot_involved_miRNAs_to_modules | Man page Source code |
| plot_miRNAs_per_gene | Man page Source code Source code |
| plot_target_gene_expressions | Man page Source code Source code |
| plot_top_modules | Man page Source code |
| precomputed_cov_matrices | Man page |
| precomputed_null_model | Man page |
| prepare_metabric_for_spongEffects | Man page Source code |
| prepare_tcga_for_spongEffects | Man page Source code |
| processChunk | Source code |
| quadraticSolver | Source code |
| sample_zero_mscor_cov | Man page Source code |
| sample_zero_mscor_data | Man page Source code |
| schur | Source code |
| split_cols | Source code |
| split_rows | Source code |
| sponge | Man page Source code |
| sponge_build_null_model | Man page Source code |
| sponge_compute_p_values | Man page Source code |
| sponge_edge_centralities | Man page Source code |
| sponge_gene_miRNA_interaction_filter | Man page Source code |
| sponge_network | Man page Source code |
| sponge_node_centralities | Man page Source code |
| sponge_plot_network | Man page Source code |
| sponge_plot_network_centralities | Man page Source code |
| sponge_plot_simulation_results | Man page Source code |
| sponge_run_benchmark | Man page Source code |
| sponge_subsampling | Man page Source code |
| targetscan_ensg | Man page |
| targetscan_symbol | Man page |
| test_cancer_gene_expr | Man page |
| test_cancer_metadata | Man page |
| test_cancer_mir_expr | Man page |
| train_cancer_gene_expr | Man page |
| train_cancer_metadata | Man page |
| train_cancer_mir_expr | Man page |
| train_ceRNA_interactions | Man page |
| train_network_centralities | Man page |
