Files in kimberlyroche/codaDE

What the Package Does in One 'Title Case' Line

R/boilerplate.R R/build_references.R R/evaluate_DA.R R/fit_pred_models.R R/parse_datasets.R R/simulate.R characterize_datasets.R cleanup_rates.R control_genes.R create_DB.R db_helper.R evaluate_methods.R feature_map.R figure_1-2-S2-S3.R figure_3-4.R figure_5-6.R figure_7.R figure_MDS_features.R figure_S1.R figure_correlogram.R generate_data.R generate_settings.R ggplot_fix.R helper_RaceID2_StemID_class.R helper_cluster_Muraro.R helper_collect_realdata_calls.R helper_report_stats.R helper_top_features.R man/DA_by_ALDEx2.Rd man/DA_by_ANCOMBC.Rd man/DA_by_DESeq2.Rd man/DA_by_MAST.Rd man/DA_by_NB.Rd man/DA_by_edgeR.Rd man/DA_by_scran.Rd man/DA_wrapper.Rd man/build_Athanasiadou_reference.Rd man/build_Barlow_reference.Rd man/build_Morton_reference.Rd man/build_simulated_reference.Rd man/calc_DA_discrepancy.Rd man/calc_threshold_DA.Rd man/call_DA_ALDEx2.Rd man/call_DA_ANCOMBC.Rd man/call_DA_DESeq2.Rd man/call_DA_MAST.Rd man/call_DA_NB.Rd man/call_DA_edgeR.Rd man/call_DA_scran.Rd man/characterize_dataset.Rd man/compute_sf.Rd man/fit_predictive_model.Rd man/generate_highcontrast_palette.Rd man/get_timestamp.Rd man/normalize_Athanasiadou.Rd man/parse_Athanasiadou.Rd man/parse_Barlow.Rd man/parse_ESCA.Rd man/parse_Ferreira.Rd man/parse_Gruen.Rd man/parse_Hagai.Rd man/parse_Hashimshony.Rd man/parse_Kimmerling.Rd man/parse_Klein.Rd man/parse_Monaco.Rd man/parse_Morton.Rd man/parse_Muraro.Rd man/parse_Owens.Rd man/parse_Song.Rd man/parse_VieiraSilva.Rd man/parse_Yu.Rd man/plot_bipartite_graph.Rd man/plot_stacked_bars.Rd man/pull_features.Rd man/resample_counts.Rd man/scaled_counts_ALDEx2.Rd man/scaled_counts_DESeq2.Rd man/scaled_counts_scran.Rd man/simulate_sequence_counts.Rd man/spike_in_ones.Rd man/wrangle_validation_data.Rd path_fix.R predictive_modeling.R pull_char_uuids.R pull_eval_uuids.R pull_quantDA_uuids.R pull_rate_uuids.R quantify_DA.R query_DB.R rate_methods.R scratch.R scratch/DE_along_cell_cycle_Hsiao.R scratch/DE_methods/MAST.R scratch/DE_methods/edgeR.R scratch/DE_methods/monocle3.R scratch/DE_methods/run_first.R scratch/DE_methods/scran.R scratch/DE_methods/seurat.R scratch/asymmetric_viz.R scratch/dispersion_Kimmerling_Owens.R scratch/figure_feature_correlation.R scratch/figure_library_sizes.R scratch/figure_nominal_counts.R scratch/migrate_DB.R scratch/migrate_characteristics.R store_char_results.R store_eval_results.R store_gen_results.R store_quantDA_results.R store_rate_results.R talk_figures.R validate.R