API for girke-lab/signatureSearch
Environment for Gene Expression Searching Combined with Functional Enrichment Analysis
| Global functions | |
|---|---|
| .S | Source code |
| .connnectivity_scale | Source code |
| .fisher_p | Source code |
| .ks | Source code |
| .lincsScores | Source code |
| .s | Source code |
| .zScores | Source code |
| GCT object | Man page |
| GSEA_fgsea | Source code |
| GSEA_fgsea2 | Source code |
| GSEA_internal | Source code |
| GSEA_internal2 | Source code |
| `$.feaResult` | Source code |
| `[.feaResult` | Source code |
| `og<-` | Source code |
| `ont<-` | Source code |
| `result<-` | Source code |
| `tg<-` | Source code |
| addGESSannot | Man page Source code |
| addMOA | Man page Source code |
| add_pcid | Man page Source code |
| append2H5 | Man page Source code |
| build_custom_db | Man page Source code |
| calcGseaStat2 | Source code |
| calcGseaStatBatchCpp | Man page Source code |
| calcGseaStatCumulative | Source code |
| calcGseaStatCumulativeBatch | Source code |
| cellNtestPlot | Man page Source code |
| cell_info | Man page |
| cell_info2 | Man page |
| check_colnames | Source code |
| chembl_moa_list | Man page |
| clue_moa_list | Man page |
| cmapEnrich | Source code |
| comp_fea_res | Man page Source code |
| connectivity_score_raw | Source code |
| cor_sig_search | Source code |
| create_empty_h5 | Man page Source code |
| deprof2subexpr | Source code |
| determine_refdb | Source code |
| dim | Man page |
| dim,feaResult-method | Man page |
| dim,gessResult-method | Man page |
| drug_cell_ranks | Man page Source code |
| drugs | Man page |
| drugs,feaResult,ANY-method | Man page |
| drugs,feaResult-method | Man page |
| drugs10 | Man page |
| drugs<- | Man page |
| drugs<-,feaResult-method | Man page |
| dsea_GSEA | Man page Source code |
| dsea_hyperG | Man page Source code |
| dtnetplot | Man page Source code |
| enrichGO2 | Man page Source code |
| enrichKEGG2 | Man page Source code |
| enrichMOA | Man page Source code |
| enrichReactome | Man page Source code |
| enricher_internal | Source code |
| feaResult | Man page Source code |
| feaResult-class | Man page |
| fgsea2 | Source code |
| fix.datatypes | Source code |
| fs | Source code |
| gctx2h5 | Man page Source code |
| gessResult | Man page Source code |
| gessResult-class | Man page |
| gess_cmap | Man page Source code |
| gess_cor | Man page Source code |
| gess_fisher | Man page Source code |
| gess_gcmap | Man page Source code |
| gess_lincs | Man page Source code |
| gess_res_vis | Man page Source code |
| getALLEG | Man page Source code |
| getDEGSig | Man page Source code |
| getDb | Man page Source code |
| getPCut | Source code |
| getSPsubSig | Man page Source code |
| getSig | Man page Source code |
| getTreats | Man page Source code |
| get_MOA_data | Source code |
| get_Reactome_DATA | Source code |
| get_Reactome_Env | Source code |
| get_targets | Man page Source code |
| gm | Source code |
| gmt2h5 | Man page Source code |
| gs2mat | Source code |
| gseGO2 | Man page Source code |
| gseKEGG2 | Man page Source code |
| gseReactome | Man page Source code |
| head | Man page |
| head,feaResult-method | Man page |
| head,gessResult-method | Man page |
| induceSMat | Source code |
| lincs_expr_inst_info | Man page |
| lincs_pert_info | Man page |
| lincs_pert_info2 | Man page |
| lincs_sig_info | Man page |
| list2df | Man page Source code |
| list2slash | Source code |
| list_rev | Man page Source code |
| load_OrgDb | Source code |
| load_sqlite | Source code |
| mabsGO | Man page Source code |
| mabsKEGG | Man page Source code |
| mabsReactome | Man page Source code |
| mabs_internal | Source code |
| mabs_score | Source code |
| matrix2h5 | Man page Source code |
| meanExpr2h5 | Man page Source code |
| moa_conn | Man page Source code |
| moa_mrk | Source code |
| og | Source code |
| ont | Source code |
| parse_gctx | Man page Source code |
| prepare_KEGG_drug | Source code |
| process_ids | Source code |
| qSig | Man page Source code |
| qSig-class | Man page |
| qr | Source code |
| randQuerySets | Source code |
| rand_query_ES | Man page Source code |
| rankMatrix | Source code |
| read.gctx.ids | Source code |
| read.gctx.meta | Source code |
| read_gmt | Man page Source code |
| refdb | Source code |
| result | Man page |
| result,feaResult-method | Man page |
| result,gessResult-method | Man page |
| runWF | Man page Source code |
| select_ont | Source code |
| sep_pcf | Source code |
| set_readable | Man page Source code |
| show | Man page |
| show,feaResult-method | Man page |
| show,gessResult-method | Man page |
| show,qSig-method | Man page |
| signatureSearch | Man page |
| signatureSearch-package | Man page |
| sim_score_grp | Man page Source code |
| slash2link | Source code |
| subset_to_ids | Source code |
| tail | Man page |
| tail,feaResult-method | Man page |
| tail,gessResult-method | Man page |
| tarReduce | Man page Source code |
| targetList | Man page |
| tg | Source code |
| trts_check | Source code |
| tsea_dup_hyperG | Man page Source code |
| tsea_mGSEA | Man page Source code |
| tsea_mabs | Man page Source code |
| validLoad | Source code |
| validh5 | Source code |
| vec_char_redu | Man page Source code |
