Man pages for MoseleyBioinformaticsLab/categoryCompare2
Meta-Analysis of High-Throughput Experiments Using Feature Annotations
| add_data_to_graph | add table data to graph |
| add_tooltip | add tooltip |
| annotation | annotation class |
| annotation_2_json | annotation to json |
| annotation_combinations | unique annotation combinations |
| annotation_gene_table | annotation to genes |
| assign_colors | assign colors |
| assign_communities | assign communities |
| binomial_basic | do binomial test |
| binomial_feature_enrichment | do binomial testing |
| binomial_features-class | binomial feature class |
| binomial_result-class | the binomial results class |
| categoryCompare2 | categoryCompare2: A package for comparing enrichment results... |
| cc_graph | cc_graph |
| combine_annotation_features | combine annotation-features |
| combine_annotations | combine annotations |
| combined_coefficient | combined coefficient |
| combined_enrichment | combined enrichments |
| combined_significant_calls | get significant annotations calls |
| combined_statistics | combined statistics |
| combine_enrichments | combine enrichments |
| combine_text | combine text |
| csv_annotation_table | print table csv |
| enriched_result | the enriched results class |
| enriched_to_fgsea | convert enriched object |
| executable_path | executable path |
| extract_enrich_stats | extract enrich stats |
| extract_statistics | get statistics |
| extract_statistics-combined_enrichment-method | extract statistics |
| filter_annotation_graph | filter graph by significant entries |
| generate_annotation_graph | generate annotation graph |
| generate_annotation_similarity_graph | annotation similarity graph |
| generate_colors | generate colors |
| generate_legend | generate a legend |
| generate_link | generate link text |
| generate_piecharts | create piecharts for visualization |
| generate_table | generate statistical table |
| get_db_annotation | orgdb annotations |
| get_significant_annotations | get significant annotations |
| get_significant_annotations_calls | get significant annotations calls |
| gocats_to_annotation | gocats to annnotations |
| graph_to_visnetwork | cc_graph to visnetwork |
| gsea_feature_enrichment | do GSEA |
| gsea_features-class | GSEA feature class |
| hypergeometric_basic | do hypergeometric test |
| hypergeometric_feature_enrichment | do hypergeometric enrichment |
| hypergeom_features-class | hypergeom feature class |
| install_executables | install executables |
| jaccard_coefficient | jaccard coefficient |
| json_2_annotation | json to annotation |
| json_annotation_reversal | annotation reversal |
| kable_annotation_table | print table kable |
| label_communities | label communities |
| multi_query_list | index a list |
| node_assign-class | node_assign |
| overlap_coefficient | overlap coefficient |
| remove_edges | remove edges |
| show-binomial_result-method | show binomial_result |
| show-combined_statistics-method | show combined_statistics |
| show-enriched_result-method | show enriched_result |
| show-node_assign-method | show node_assign |
| show-significant_annotations-method | show signficant_annotations |
| significant_annotations | significant annotations |
| statistical_results-class | statistical results class |
| table_from_graph | table from graph |
| vis_in_cytoscape | visualize in cytoscape |
| vis_visnetwork | vis in visNetwork |
