Files in momeara/MPStats

Tools for analyzing Morphological Profiling data

MPStats_logo.pdf R/bayesian_workflow.R R/database_support.R R/fit_MuSyC_score_by_dose.R R/fit_brms_flat_score_by_dose.R R/fit_brms_hill_score_by_dose.R R/fit_drc_score_by_dose.R R/fit_principal_curves.R R/generate_combo_plate_maps.R R/geom_indicator.R R/geom_split_violin.R R/model_cell_count_by_batch_vars.R R/model_cluster_id_by_feature.R R/model_score_by_batch_vars.R R/monocle3_support.R R/plate_layout.R R/plot_Zprime_by_dye.R R/plot_Zprime_by_top_features.R R/plot_binomial_trial_credible_intervals.R R/plot_brms_predictor_residuals_score_by_dose.R R/plot_brms_score_by_dose.R R/plot_cell_count_by_batch_vars_density.R R/plot_cell_count_by_batch_vars_scatter.R R/plot_checkerboard_score_by_dose.R R/plot_drc_score_by_dose.R R/plot_embedded_cluster_principal_curves.R R/plot_feature_correlation_matrix.R R/plot_principal_curve_projections.R R/plot_score_by_batch_vars_density.R R/plot_score_by_batch_vars_scatter.R R/plot_score_by_cell_count.R R/plot_top_features_by_controls.R R/read_Zprime_by_plate.R R/read_cell_features.R R/read_compound_moa.R R/read_well_scores.R R/util.R README.md man/GeomIndicator.Rd man/MuSyC_default_prior.Rd man/MuSyC_hi_to_si.Rd man/MuSyC_si_to_hi.Rd man/Zprime.Rd man/bayesplot_theme.Rd man/binomial_quantile.Rd man/binomial_variance.Rd man/compute_qc_covariates.Rd man/date_code.Rd man/fit_MuSyC_score_by_dose.Rd man/fit_MuSyC_score_by_dose_robust.Rd man/fit_brms_flat_score_by_dose.Rd man/fit_brms_hill_score_by_dose.Rd man/fit_brms_npos_nneg_by_dose.Rd man/fit_drc_score_by_dose.Rd man/fit_principal_curves.Rd man/generate_MuSyC_effects.Rd man/generate_MuSyC_effects_robust.Rd man/generate_hill_effects.Rd man/get_database_connection.Rd man/loo_R2_indicator.Rd man/model_cell_count_by_batch_vars_lm.Rd man/model_score_by_batch_vars_lm.Rd man/pairsplot.Rd man/plate_layout.Rd man/plot_Zprime_by_dye.Rd man/plot_Zprime_by_top_features.Rd man/plot_binomial_variance_by_cell_count.Rd man/plot_brms_predictor_residual_score_by_dose.Rd man/plot_brms_score_by_dose.Rd man/plot_cell_count_by_batch_vars_density.Rd man/plot_cell_count_by_batch_vars_scatter.Rd man/plot_checkerboard_score_by_dose.Rd man/plot_drc_score_by_dose.Rd man/plot_embedded_cluster_principal_curves.Rd man/plot_heatmap.Rd man/plot_principal_curve_projections.Rd man/plot_score_by_batch_vars_density.Rd man/plot_score_by_batch_vars_scatter.Rd man/plot_score_by_cell_count.Rd man/poisson_quantile.Rd man/populate_cds.Rd man/prior_posterior_plot.Rd man/rankplot.Rd man/read_Zprime_by_plate.Rd man/read_cell_features.Rd man/read_compound_moa.Rd man/read_well_scores.Rd man/serialize_clusters.Rd man/traceplot.Rd man/umich_colors.Rd man/well_id_to_column.Rd man/well_id_to_row.Rd man/well_index_to_column.Rd man/well_index_to_row.Rd vignettes/Zprime_analysis.R