API for jokergoo/rGREAT
GREAT Analysis - Functional Enrichment on Genomic Regions
| Global functions | |
|---|---|
| .onAttach | Source code |
| GREAT.read.json | Source code |
| GreatJob | Man page Source code |
| GreatJob-class | Man page |
| GreatObject | Man page Source code |
| GreatObject-class | Man page |
| availableCategories | Man page |
| availableCategories,GreatJob-method | Man page |
| availableOntologies | Man page |
| availableOntologies,GreatJob-method | Man page |
| check_asso_file | Source code |
| check_pkg | Source code |
| detect_orgdb | Source code |
| detect_txdb | Source code |
| download | Source code |
| download_enrichment_table | Source code |
| expandRange | Source code |
| extendTSS | Man page Source code |
| extendTSSFromDataFrame | Man page Source code |
| extendTSSFromOrgDb | Man page Source code |
| extendTSSFromTxDb | Man page Source code |
| filter_seqlength | Source code |
| getChromInfoFromUCSC | Source code |
| getEnrichmentTable | Man page |
| getEnrichmentTable,GreatJob-method | Man page |
| getEnrichmentTable,GreatObject-method | Man page |
| getEnrichmentTables | Man page |
| getEnrichmentTables,GreatJob-method | Man page |
| getEnrichmentTables,GreatObject-method | Man page |
| getGREATDefaultTSS | Man page Source code |
| getGapFromUCSC | Man page Source code |
| getGeneSetsFromBioMart | Man page Source code |
| getGeneSetsFromOrgDb | Man page Source code |
| getGenesFromBioMart | Source code |
| getGenesFromGencode | Man page Source code |
| getGenomeDataFromNCBI | Man page Source code |
| getKEGGGenome | Man page Source code |
| getKEGGPathways | Man page Source code |
| getRefSeqGenesFromUCSC | Man page Source code |
| getRegionGeneAssociations | Man page |
| getRegionGeneAssociations,GreatJob-method | Man page |
| getRegionGeneAssociations,GreatObject-method | Man page |
| getTSS | Man page Source code |
| getTSSFromOrgDb | Source code |
| getTSSFromTxDb | Source code |
| get_defaultly_suppported_gene_sets | Source code |
| get_orgdb_from_genome_version | Source code |
| get_table_from_orgdb | Source code |
| get_url | Source code |
| great | Man page Source code |
| great_opt | Man page Source code |
| gs_dataframe2list | Source code |
| guess_gene_id_type | Source code |
| parseRegionGeneAssociationFile | Source code |
| parse_tss_source | Source code |
| plotRegionGeneAssociationGraphs | Man page |
| plotRegionGeneAssociationGraphs,GreatJob-method | Man page |
| plotRegionGeneAssociations | Man page |
| plotRegionGeneAssociations,GreatJob-method | Man page |
| plotRegionGeneAssociations,GreatObject-method | Man page |
| plotVolcano | Man page |
| plotVolcano,GreatJob-method | Man page |
| plotVolcano,GreatObject-method | Man page |
| plot_great | Source code |
| plot_volcano | Source code |
| randomRegions | Man page |
| randomRegionsFromBioMartGenome | Man page Source code |
| read_gmt | Man page Source code |
| reduce_by_start_and_end | Man page Source code |
| shinyReport | Man page |
| shinyReport,GreatJob-method | Man page |
| shinyReport,GreatObject-method | Man page |
| sleep | Source code |
| sort_chr | Source code |
| submitGreatJob | Man page Source code |
