Files in neurogenomics/MultiEWCE

Multi-Scale Target Explorer

.Rbuildignore

.Renviron

.Rhistory

.github/workflows/rworkflows.yml

.gitignore

DESCRIPTION

MSTExplorer.Rproj

NAMESPACE

NEWS.md R/0docs.R R/add_ctd.R R/add_driver_genes.R R/add_logfc.R R/add_symptom_results.R R/add_top_value.R R/agg_results.R R/construct_labeller.R R/correlation_heatmap.R R/create_dt.R R/data.R R/ewce_para.R R/extract_filters.R R/extract_help.R R/filter_ggstatsplot.R R/fix_cl_ids.R R/gen_overlap.R R/gen_overlap_test.R R/gen_results.R R/gen_results_save_path.R R/get_bg.R R/get_color_map.R R/get_data.R R/get_ggstatsplot_stats.R R/get_target_branches.R R/get_target_celltypes.R R/get_unfinished_list_names.R R/get_valid_gene_lists.R R/ggnetwork_plot_full.R R/is_not_analysed.R R/limit_facets.R R/load_example_CTD.R R/load_example_results.R R/make_save_path.R R/make_specificity_dt.R R/map_celltype.R R/map_ctd_levels.R R/map_tissue.R R/merge_results.R R/messager.R R/ontology_to_ggdendro.R R/plot_bar_dendro.R R/plot_bar_dendro_facets.R R/plot_bar_summary.R R/plot_congenital_annotations.R R/plot_density_cor.R R/plot_differential_outcomes.R R/plot_differential_outcomes_ggstatsplot.R R/plot_differential_outcomes_heatmap.R R/plot_frequency_bar.R R/plot_frequency_bar_i.R R/plot_frequency_histogram.R R/plot_frequency_prepare.R R/plot_ontology_levels.R R/plot_proportional_enrichment.R R/plot_report.R R/plot_results_distributions.R R/plot_tissues.R R/plot_ttd.R R/predict_celltypes.R R/prioritise_targets.R R/prioritise_targets_heatmap.R R/prioritise_targets_network.R R/report.R R/run_phenomix.R R/run_similarity.R R/save_results.R R/stopper.R R/subset_phenos.R R/subset_results.R R/summarise_results.R R/targets_to_graph.R R/terminal_celltypes.R R/test_target_celltypes.R R/ttd_check.R R/ttd_hypergeo.R R/validate_associations_correlate_ctd.R R/validate_associations_mkg.R R/validate_associations_mkg_dist.R README.Rmd README.md

data/celltype_maps.rda

data/example_targets.rda

data/tissue_maps.rda

inst/CITATION

inst/extdata/terminal_celltypes.csv.gz

inst/hex/2BIeTx6RN6O00CAaeY68q2.jpg

inst/hex/hex.png

inst/hex/hexSticker.Rmd inst/pbs/collect_results.R inst/pbs/rare_disease_celltyping.R

inst/pbs/rare_disease_celltyping.pbs

man/add_ctd.Rd man/add_logfc.Rd man/add_symptom_results.Rd man/agg_results.Rd man/celltype_maps.Rd man/correlation_heatmap.Rd man/create_dt.Rd man/ewce_para.Rd man/example_targets.Rd man/extract_help.Rd man/gen_overlap.Rd man/gen_results.Rd man/get_bg.Rd man/get_data.Rd man/get_target_branches.Rd man/get_unfinished_list_names.Rd man/get_valid_gene_lists.Rd man/ggnetwork_plot_full.Rd man/is_not_analysed.Rd man/load_example_CTD.Rd man/load_example_results.Rd man/map_celltype.Rd man/map_tissue.Rd man/merge_results.Rd man/messager.Rd man/plot_.Rd man/plot_bar_dendro.Rd man/plot_bar_dendro_facets.Rd man/plot_bar_summary.Rd man/plot_congenital_annotations.Rd man/plot_differential_outcomes.Rd man/plot_differential_outcomes_heatmap.Rd man/plot_frequency_bar.Rd man/plot_frequency_histogram.Rd man/plot_ontology_levels.Rd man/plot_report.Rd man/plot_results_distributions.Rd man/plot_ttd.Rd man/predict_celltypes.Rd man/prioritise_targets.Rd man/prioritise_targets_network.Rd man/run_phenomix.Rd man/stopper.Rd man/subset_phenos.Rd man/subset_results.Rd man/summarise_results.Rd man/terminal_celltypes.Rd man/test_target_celltypes.Rd man/tissue_maps.Rd man/ttd_check.Rd man/validate_associations_correlate_ctd.Rd man/validate_associations_mkg.Rd tests/testthat.R tests/testthat/test-add_symptom_results.R tests/testthat/test-agg_results.R tests/testthat/test-correlation_heatmap.R tests/testthat/test-create_dt.R tests/testthat/test-ewce_para.R tests/testthat/test-frequency_histogram.R tests/testthat/test-gen_overlap.R tests/testthat/test-gen_results.R tests/testthat/test-ggnetwork_plot_full.R tests/testthat/test-load_example_results.R tests/testthat/test-plot_bar_dendro.R tests/testthat/test-plot_differential_outcomes.R tests/testthat/test-plot_ontology_levels.R tests/testthat/test-prioritise_targets.R tests/testthat/test-prioritise_targets_network.R tests/testthat/test-report_plot.R tests/testthat/test-summary_plot.R tests/testthat/test-ttd_check.R

vignettes/.gitignore

vignettes/MSTExplorer.Rmd vignettes/docker.Rmd

neurogenomics/MultiEWCE documentation built on April 22, 2024, 6:22 a.m.