.map_references         Map references
annotate_dt_with_cell_line
                        annotate_dt_with_cell_line
annotate_dt_with_drug   annotate_dt_with_drug
annotate_mae_with_cell_line
                        annotate_mae_with_cell_line
annotate_mae_with_drug
                        annotate_mae_with_drug
annotate_se_with_cell_line
                        annotate_se_with_cell_line
annotate_se_with_drug   annotate_se_with_drug
average_SE              Run drug response processing pipeline
calculate_GR_value      Calculate a GR value.
calculate_excess        Calculate the difference between values in two
                        data.tables
calculate_matrix_metric
                        Calculate a metric for combination data.
calculate_score         Calculate score for HSA and Bliss
cleanup_metadata        cleanup_metadata
convert_mae_to_raw_data
                        Transform mae into raw data
convert_se_to_raw_data
                        Transform se into raw_data
data_model              Detect model of data
data_model.character    Detect model of data from experiment name
data_model.data.table   Detect model of data in data.table
fit_SE.combinations     fit_SE for combination screens
get_assays_per_pipeline_step
                        get info about created/present assays in SE at
                        the given pipeline step
get_cell_line_annotation
                        get_cell_line_annotation
get_cellline_annotation_from_dt
                        Retrieve the cell line annotation from the
                        annotated dt input
get_default_nested_identifiers
                        Get default nested identifiers
get_drug_annotation     get_drug_annotation
get_drug_annotation_from_dt
                        Retrieve the drug annotation from the annotated
                        dt input
grr_matches             Value Matching
identify_data_type      Identify type of data
identify_keys           identify_keys
map_df                  Map treated conditions to their respective
                        references.
map_ids_to_fits         Get predicted values for a given fit and input.
map_untreated           Identify untreated rows based on Drug treatment
                        alone
merge_data              merge_data
order_result_df         Order_result_df
prepare_input           Prepare input data common for all experiments
prepare_input.MultiAssayExperiment
                        Prepare input data common for all experiments
prepare_input.data.table
                        Prepare input data common for all experiments
process_perturbations   Cleanup additional perturbations in the
                        data.table
replace_conc_with_standardized_conc
                        Standardize concentrations.
split_raw_data          Split raw data into list based on the data
                        types
test_synthetic_data     Testing synthetic data form gDRtestData package
