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  "Title": "Processing functions and interface to process and analyze drug\ndose-response data",
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  "Description": "This package contains core functions to process and\nanalyze drug response data. The package provides tools for\nnormalizing, averaging, and calculation of gDR metrics data.\nAll core functions are wrapped into the pipeline function\nallowing analyzing the data in a straightforward way.",
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    "annotate_dt_with_drug",
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    "annotate_se_with_cell_line",
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    "calculate_excess",
    "calculate_GR_value",
    "calculate_HSA",
    "calculate_score",
    "calculate_time_dep_GR_value",
    "cleanup_metadata",
    "compute_growth_rates",
    "convert_mae_to_raw_data",
    "convert_se_to_raw_data",
    "create_and_normalize_SE",
    "create_SE",
    "data_model",
    "fit_drug_response_metrics",
    "fit_drug_response_metrics_4p",
    "fit_SE",
    "fit_SE.combinations",
    "fit_SE.timecourse",
    "get_cell_line_annotation",
    "get_cellline_annotation_from_dt",
    "get_default_nested_identifiers",
    "get_drug_annotation",
    "get_drug_annotation_from_dt",
    "get_fit_profile",
    "get_fit_profiles",
    "get_period_timepoints",
    "growth_rates_to_se",
    "grr_matches",
    "hss_fit_fn",
    "identify_data_type",
    "identify_keys",
    "map_df",
    "map_ids_to_fits",
    "map_untreated",
    "merge_data",
    "normalize_SE",
    "prepare_input",
    "process_perturbations",
    "register_fit_profile",
    "replace_conc_with_standardized_conc",
    "runDrugResponseProcessingPipeline",
    "split_raw_data",
    "test_synthetic_data"
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      "title": "annotate_dt_with_drug",
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      "title": "annotate_mae_with_cell_line",
      "topics": [
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      "title": "annotate_mae_with_drug",
      "topics": [
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      "page": "annotate_se_with_cell_line",
      "title": "annotate_se_with_cell_line",
      "topics": [
        "annotate_se_with_cell_line"
      ]
    },
    {
      "page": "annotate_se_with_drug",
      "title": "annotate_se_with_drug",
      "topics": [
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      "title": "apply_combo_excess",
      "topics": [
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      "title": "apply_combo_isobolograms",
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      "page": "apply_combo_sa_fits",
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      "topics": [
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      "title": "apply_combo_scores",
      "topics": [
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      "page": "runDrugResponseProcessingPipelineFxns",
      "title": "Run drug response processing pipeline",
      "topics": [
        "average_SE",
        "create_and_normalize_SE",
        "create_SE",
        "fit_SE",
        "normalize_SE",
        "runDrugResponseProcessingPipeline",
        "runDrugResponseProcessingPipelineFxns"
      ]
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      "title": "bliss_fit_fn",
      "topics": [
        "bliss_fit_fn"
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    },
    {
      "page": "calculate_excess",
      "title": "Calculate the difference between values in two data.tables",
      "topics": [
        "calculate_excess"
      ]
    },
    {
      "page": "calculate_GR_value",
      "title": "Calculate a GR value.",
      "topics": [
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        "calculate_GR_value",
        "calculate_time_dep_GR_value"
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      "title": "Calculate score for HSA and Bliss",
      "topics": [
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    },
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      "title": "cleanup_metadata",
      "topics": [
        "cleanup_metadata"
      ]
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    {
      "page": "compute_growth_rates",
      "title": "Compute per-period growth rates for time-course screens",
      "topics": [
        "compute_growth_rates"
      ]
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    {
      "page": "convert_mae_to_raw_data",
      "title": "Transform mae into raw data",
      "topics": [
        "convert_mae_to_raw_data"
      ]
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      "title": "Transform se into raw_data",
      "topics": [
        "convert_se_to_raw_data"
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    },
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      "page": "data_model",
      "title": "Detect model of data",
      "topics": [
        "data_model"
      ]
    },
    {
      "page": "data_model.character",
      "title": "Detect model of data from experiment name",
      "topics": [
        "data_model.character"
      ]
    },
    {
      "page": "data_model.data.table",
      "title": "Detect model of data in data.table",
      "topics": [
        "data_model.data.table"
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      "title": "fit_SE for combination screens",
      "topics": [
        "fit_SE.combinations"
      ]
    },
    {
      "page": "fit_SE.timecourse",
      "title": "fit_SE for time-course (Incucyte) screens",
      "topics": [
        "fit_SE.timecourse"
      ]
    },
    {
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      "topics": [
        "get_assays_per_pipeline_step"
      ]
    },
    {
      "page": "get_cell_line_annotation",
      "title": "get_cell_line_annotation",
      "topics": [
        "get_cell_line_annotation"
      ]
    },
    {
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      "title": "Retrieve the cell line annotation from the annotated dt input",
      "topics": [
        "get_cellline_annotation_from_dt"
      ]
    },
    {
      "page": "get_default_nested_identifiers",
      "title": "Get default nested identifiers",
      "topics": [
        "get_default_nested_identifiers",
        "get_default_nested_identifiers.data.table",
        "get_default_nested_identifiers.SummarizedExperiment"
      ]
    },
    {
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      "title": "get_drug_annotation",
      "topics": [
        "get_drug_annotation"
      ]
    },
    {
      "page": "get_drug_annotation_from_dt",
      "title": "Retrieve the drug annotation from the annotated dt input",
      "topics": [
        "get_drug_annotation_from_dt"
      ]
    },
    {
      "page": "get_period_timepoints",
      "title": "List the measurement timepoints entering each growth-rate window",
      "topics": [
        "get_period_timepoints"
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    },
    {
      "page": "growth_rates_to_se",
      "title": "Convert a growth rate table into the stage 2 SummarizedExperiment",
      "topics": [
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      ]
    },
    {
      "page": "grr_matches",
      "title": "Value Matching",
      "topics": [
        "grr_matches"
      ]
    },
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