Files in reactome/ReactomeGSA

Client for the Reactome Analysis Service for comparative multi-omics gene set analysis

R/analyse_sc_clusters.R R/analysis_request.R R/analysis_result.R R/generate_metadata.R R/generate_pseudo_bulk_data.R R/get_methods.R R/get_result.R R/gsva_plotting_functions.R R/on_load.R R/perform_analysis.R R/plotting_functions.R R/public_data.R R/send_request.R R/utils.R README.md man/ReactomeAnalysisRequest.Rd man/ReactomeAnalysisResult-class.Rd man/add_dataset-ReactomeAnalysisRequest-DGEList-method.Rd man/add_dataset-ReactomeAnalysisRequest-EList-method.Rd man/add_dataset-ReactomeAnalysisRequest-ExpressionSet-method.Rd man/add_dataset-ReactomeAnalysisRequest-data.frame-method.Rd man/add_dataset-ReactomeAnalysisRequest-matrix-method.Rd man/add_dataset.Rd man/analyse_sc_clusters-Seurat-method.Rd man/analyse_sc_clusters-SingleCellExperiment-method.Rd man/analyse_sc_clusters.Rd man/break_names.Rd man/checkRequestValidity.Rd man/check_reactome_url.Rd man/convert_reactome_result.Rd man/data_frame_as_string.Rd man/fetch_public_data.Rd man/find_public_datasets.Rd man/generate_metadata-data.frame-method.Rd man/generate_metadata.Rd man/generate_pseudo_bulk_data-Seurat-method.Rd man/generate_pseudo_bulk_data-SingleCellExperiment-method.Rd man/generate_pseudo_bulk_data.Rd man/get_dataset_loading_status.Rd man/get_fc_for_dataset.Rd man/get_is_sig_dataset.Rd man/get_public_species.Rd man/get_reactome_analysis_result.Rd man/get_reactome_analysis_status.Rd man/get_reactome_data_types.Rd man/get_reactome_methods.Rd man/get_result-ReactomeAnalysisResult-method.Rd man/get_result.Rd man/is_gsva_result.Rd man/load_public_dataset.Rd man/names-ReactomeAnalysisResult-method.Rd man/open_reactome-ReactomeAnalysisResult-method.Rd man/open_reactome.Rd man/pathways-ReactomeAnalysisResult-method.Rd man/pathways.Rd man/perform_reactome_analysis.Rd man/plot_correlations-ReactomeAnalysisResult-method.Rd man/plot_correlations.Rd man/plot_gsva_heatmap-ReactomeAnalysisResult-method.Rd man/plot_gsva_heatmap.Rd man/plot_gsva_pathway-ReactomeAnalysisResult-method.Rd man/plot_gsva_pathway.Rd man/plot_gsva_pca-ReactomeAnalysisResult-method.Rd man/plot_gsva_pca.Rd man/plot_heatmap-ReactomeAnalysisResult-method.Rd man/plot_heatmap.Rd man/plot_volcano-ReactomeAnalysisResult-method.Rd man/plot_volcano.Rd man/print-ReactomeAnalysisRequest-method.Rd man/print-ReactomeAnalysisResult-method.Rd man/reactome_links-ReactomeAnalysisResult-method.Rd man/reactome_links.Rd man/remove_dataset-ReactomeAnalysisRequest-method.Rd man/remove_dataset.Rd man/result_types-ReactomeAnalysisResult-method.Rd man/result_types.Rd man/set_method-ReactomeAnalysisRequest-method.Rd man/set_method.Rd man/set_parameters-ReactomeAnalysisRequest-method.Rd man/set_parameters.Rd man/show-ReactomeAnalysisRequest-method.Rd man/show-ReactomeAnalysisResult-method.Rd man/split_clustering.Rd man/split_random_sce.Rd man/split_subclustering_sce.Rd man/split_variable.Rd man/split_variable_random.Rd man/split_variable_sce.Rd man/start_reactome_analysis.Rd man/wait_for_loading_dataset.Rd tests/testthat.R tests/testthat/test_analysis_request.R vignettes/analysing-scRNAseq.Rmd vignettes/reanalysing-public-data.Rmd vignettes/using-reactomegsa.Rmd