Files in lagelab/Genoppi

genoppi

R/add_plotly_layout_scatter.R R/add_plotly_layout_volcano.R R/add_plotly_line_unity.R R/add_plotly_markers_search.R R/add_plotly_markers_search_pathway.R R/add_plotly_threshold_lines.R R/add_plotly_trace.R R/append_to_column.R R/calc_cumsum_table.R R/calc_fisher.R R/calc_hyper.R R/calc_logfc_limit.R R/calc_mod_ttest.R R/check_input.R R/collapse_labels.R R/data.R R/draw_genoppi_venn.R R/enumerate_replicate_combinations.R R/get_bioplex_list.R R/get_gene_from_snp.R R/get_gene_lists.R R/get_geneset_overlay.R R/get_gwas_lists.R R/get_inweb_list.R R/get_irefindex_list.R R/get_overlay_df.R R/get_pathways.R R/get_replicate_summary_text.R R/get_shiny_errors.R R/get_snp_lists.R R/get_tissue_list.R R/html_translate_significance_thresholds.R R/id_enriched_proteins.R R/lapply_calc_hyper.R R/launch_genoppi.R R/make_interactive.R R/map_gene_id.R R/misc.R R/parse_rd.R R/parse_uploaded_file.R R/plot_overlay.R R/plot_scatter_basic.R R/plot_tissue_enrichment.R R/plot_volcano_basic.R R/read_input.R R/set_names_by_dataset.R R/stop_invalid.R R/subset_snp_loci.R R/tabulate_markers.R R/theme_genoppi.R R/to_overlay_data.R R/validate_reference.R R/venn_to_table.R README.md inst/shiny-examples/myapp/basic.Rmd inst/shiny-examples/myapp/global.R inst/shiny-examples/myapp/server.R inst/shiny-examples/myapp/synthesize_documentation.R inst/shiny-examples/myapp/ui.R inst/shiny-examples/myapp/www/welcome_guide_v1.0_210514.pdf man/accession_gene_table.Rd man/add_plotly_layout_scatter.Rd man/add_plotly_layout_volcano.Rd man/add_plotly_line_unity.Rd man/add_plotly_markers_search.Rd man/add_plotly_markers_search_pathway.Rd man/add_plotly_threshold_lines.Rd man/add_plotly_trace.Rd man/append_to_column.Rd man/as.bait.Rd man/as.goi.Rd man/assign_color.Rd man/assign_freq.Rd man/bioplex_table.Rd man/bold.Rd man/calc_cumsum_table.Rd man/calc_fisher.Rd man/calc_hyper.Rd man/calc_logfc_limit.Rd man/calc_mod_ttest.Rd man/catf.Rd man/check_input.Rd man/collapse_labels.Rd man/color_distinct.Rd man/color_gradient.Rd man/draw_genoppi_venn.Rd man/enumerate_replicate_combinations.Rd man/example_data.Rd man/example_data2.Rd man/example_data3.Rd man/find_docs.Rd man/genes_snps.Rd man/get_bioplex_list.Rd man/get_gene_from_snp.Rd man/get_gene_lists.Rd man/get_geneset_overlay.Rd man/get_gg_legend.Rd man/get_gwas_lists.Rd man/get_inweb_list.Rd man/get_irefindex_list.Rd man/get_overlay_df.Rd man/get_pathways.Rd man/get_replicate_summary_text.Rd man/get_shiny_errors.Rd man/get_snp_lists.Rd man/get_tissue_list.Rd man/get_tissue_lists.Rd man/gnomad_table.Rd man/goa_bp_table.Rd man/goa_cc_table.Rd man/goa_mf_table.Rd man/grapes-nin-grapes.Rd man/gtex_protein.Rd man/gtex_rna.Rd man/gwas_table.Rd man/hgnc_group_table.Rd man/hline.Rd man/hpa_rna.Rd man/html_translate_significance_thresholds.Rd man/hyperlink.Rd man/id_enriched_proteins.Rd man/id_significant_proteins.Rd man/inweb_table.Rd man/irefindex_table.Rd man/is_cols.Rd man/italics.Rd man/lapply_calc_hyper.Rd man/launch_genoppi.Rd man/line_unity.Rd man/lun.Rd man/make_interactive.Rd man/map_gene_id.Rd man/msigdb_c1_table.Rd man/msigdb_c2_table.Rd man/msigdb_c3_table.Rd man/msigdb_c4_table.Rd man/msigdb_c5_table.Rd man/msigdb_c6_table.Rd man/msigdb_c7_table.Rd man/msigdb_h_table.Rd man/null_omit.Rd man/parse_rd.Rd man/parse_uploaded_file.Rd man/plot_overlay.Rd man/plot_scatter_basic.Rd man/plot_scatter_basic_all.Rd man/plot_tissue_enrichment.Rd man/plot_venn.Rd man/plot_volcano_basic.Rd man/plotly_tissue_enrichment.Rd man/read_input.Rd man/set_names_by_dataset.Rd man/shape_to_symbol.Rd man/stop_invalid_columns.Rd man/strsplit.nchar.Rd man/subset_snp_loci.Rd man/symbol_to_shape.Rd man/table_symbols.Rd man/tabulate_markers.Rd man/theme_genoppi_bar.Rd man/theme_scatter.Rd man/theme_volcano.Rd man/theme_volcano_custom.Rd man/to_overlay_data.Rd man/validate_reference.Rd man/venn_to_table.Rd man/vline.Rd tests/testthat.R tests/testthat/data/goa_bp_table.Rd tests/testthat/functions/compare_image.R tests/testthat/test.add_layout_html_axes.R tests/testthat/test.add_line_unity.R tests/testthat/test.add_plotly_layout_scatter.R tests/testthat/test.add_plotly_markers_search.R tests/testthat/test.add_plotly_markers_search_pathway.R tests/testthat/test.add_plotly_threshold_lines.R tests/testthat/test.add_plotly_trace.R tests/testthat/test.add_threshold_lines.R tests/testthat/test.append_to_column.R tests/testthat/test.calc_adujusted_enrichment.R tests/testthat/test.calc_cumsum_table.R tests/testthat/test.calc_fisher.R tests/testthat/test.calc_hyper.R tests/testthat/test.calc_logfc_limits.R tests/testthat/test.calc_mod_ttest.R tests/testthat/test.check_input.R tests/testthat/test.collapse_labels.R tests/testthat/test.draw_venn_simple.R tests/testthat/test.enumerate_replicate_combinations.R tests/testthat/test.genoppi_theme.R tests/testthat/test.get_bioplex_list.R tests/testthat/test.get_gene_from_snp.R tests/testthat/test.get_gene_lists.R tests/testthat/test.get_geneset_overlay.R tests/testthat/test.get_gwas_lists.R tests/testthat/test.get_inweb_list.R tests/testthat/test.get_irefindex_list.R tests/testthat/test.get_pathways.R tests/testthat/test.get_replicate_summary_text.R tests/testthat/test.get_shiny_errors.R tests/testthat/test.get_snp_lists.R tests/testthat/test.get_tissue_lists.R tests/testthat/test.html_translate_significance_thresholds.R tests/testthat/test.id_enriched_proteins.R tests/testthat/test.make_interactive.R tests/testthat/test.map_gene_id.R tests/testthat/test.misc.R tests/testthat/test.parse_rd.R tests/testthat/test.parse_uploaded_file.R tests/testthat/test.plot_overlay.R tests/testthat/test.plot_scatter_basic.R tests/testthat/test.plot_tissue_enrichment.R tests/testthat/test.read_input.R tests/testthat/test.readme.R tests/testthat/test.set_names_by_dataset.R tests/testthat/test.subset_snp_loci.R tests/testthat/test.venn_to_table.R