Man pages for ViSEAGO
ViSEAGO: a Bioconductor package for clustering biological functions using Gene Ontology and semantic similarity
| annotate-methods | Retrieve GO annotations for a specie from genomic ressource... |
| available_organisms-methods | Display available organisms from a specified database. |
| Bioconductor2GO | Check available organisms databases at Bioconductor. |
| build_GO_SS-methods | build GO Semantic Similarity object. |
| clusters_cor-methods | Compute distance matrix between dendrograms partitions. |
| compare_clusters-methods | Heatmap to compare partitions |
| compute_SS_distances-methods | Compute distance between GO terms or GO clusters based on... |
| create_topGOdata-methods | Create topGOdata object for enrichment test with topGO... |
| Custom2GO | Store organisms GO annotations from custom database file. |
| enrich_GO_terms-class | enrich_GO_terms class object definition. |
| Ensembl2GO | Check available organisms datasets at Ensembl. |
| EntrezGene2GO | Store available organisms GO annotations at EntrezGene. |
| EntrezGene_orthologs | Download EntrezGene orthologs groups. |
| fgsea-class | fgsea class object definition. |
| gene2GO-class | gene2GO class object definition. |
| genomic_ressource-class | genomic_ressource class object definition. |
| GO_clusters-class | GO_clusters class object |
| GOclusters_heatmap-methods | Build a clustering heatmap on GO groups. |
| GOcount-methods | Barplot for the count of GO terms. |
| GO_SS-class | GO_SS class object definition. |
| GOterms_heatmap-methods | Build a clustering heatmap on GO terms. |
| MDSplot-methods | Multi Dimensional Scale (MDS) plot |
| merge_enrich_terms-methods | Merge enriched GO terms. |
| myGOs | myGOs dataset |
| overLapper | build all sets combinations intersections |
| pkgdiagram | Display the ViSEAGO package diagram. |
| runfgsea-methods | perform multilevel preranked gene set enrichment analysis. |
| show_heatmap-methods | Display an interactive or static heatmap. |
| show_table-methods | Display an interactive or static table. |
| taxonomy | Display Organism Scientific and common name from taxid. |
| Uniprot2GO | Check available organisms databases at Uniprot. |
| Upset-methods | Enriched GO terms intersections plot. |
| ViSEAGO | ViSEAGO package |
