Package index • embraceR

All functions

NODAL_POSITION_MAPPING: Node Position Mapping Constants

add_age(): Add Age to Data Frame

add_average_active_needles(): Calculate Average Number of Active Needles

add_disease_events(): Add Disease Event Columns

add_grade_ctcae_event_column(): Add Grade-Specific CTCAE Event Indicator

add_hrctv_volume_bins(): Bin HRCTV Volume Values

add_icis(): Add ICIS Indicator Based on Technique

add_local_failure_event(): Add Local Failure Event Column

add_locoregional_event(): Add Locoregional Event Status (Pelvic/PAO)

add_locoregional_event_with_verification(): Add Locoregional Event Status with Verification

add_lost_to_fu(): Check if any follow-up is lost

add_max_tumor_dimension(): Add Maximum Tumor Dimension Columns

add_metastases(): Add Metastases Variables

add_metastases_with_verification(): Add Metastases Variables with Verification

add_nodal_failure_event(): Add Nodal Failure Event Column

add_number_paraaortic_ln_stat_d(): Count Para-Aortic Lymph Nodes

add_parallel_oblique_needles(): Add Parallel or Oblique Needle Classification

add_parametrial_involvement(): Add Maximum Parametrial Involvement Columns

add_systemic_failure_event(): Add Systemic Failure Event Column

add_time_to_bt(): Add Time-to-BT and OTT-EBRT Features

add_time_to_diseaseevent(): Calculate Time to Disease Event

add_time_to_last_vitalstatus(): Calculate Time to Last Vital Status

add_vitalstatus_event(): Add Vital Status Event Column

apply_change_log(): Apply Changes from Change Log

check_multiple_locations(): Check for Multiple Nodal Locations

check_nodal_location(): Check for Specific Nodal Location

clean_eortc_names(): Clean EORTC Column Names

clean_side_effect_names(): Clean Side Effect Column Names

createStyledExcelSheet(): Create Styled Excel Report for Patient Side Effects

create_combined_labels(): Create Combined Labels for Summary Table

create_comparative_outcomes_table(): Create Comparative Outcomes Table

emi_add_disease_control(): Add Disease Control Status for Embrace I

emi_add_progression_free_survival(): Add Progression-Free Survival Status for Embrace I

emii_add_cancer_specific(): Add Cancer-Specific Survival Status

emii_add_cancer_specific_with_verification(): Add Cancer-Specific Survival Status with Verification

emii_add_diagnostic_nodes(): Add Diagnostic Node Locations

emii_add_disease_control(): Add Disease Control Status

emii_add_disease_control_with_verification(): Add Disease Control Status with Verification

emii_add_distant_alone(): Add Distant Alone Status

emii_add_distant_alone_with_verification(): Add Distant Alone Status with Verification

emii_add_elective_targets(): Add Elective Target Analysis for EMBRACE-II

emii_add_max_morbidity(): Add Maximum Side Effects to Original Data

emii_add_nodal_classification(): Add Nodal Classification

emii_add_nodalcontrol_incl_pao(): Add Nodal Control (incl. para-aortic) Event Variable

emii_add_nodalcontrol_incl_pao_with_verification(): Add Nodal Control (incl. para-aortic) Event Variable with Verification

emii_add_number_common_iliac_ln_stat_d(): Count Common Iliac Lymph Nodes

emii_add_ott(): Add Overall Treatment Time (OTT) to a Data Frame

emii_add_outcome(): Add All EMBRACE-II Outcome Endpoints

emii_add_paraaortic_nodal(): Add Para-aortic Nodal Control Status

emii_add_paraaortic_nodal_with_verification(): Add Para-aortic Nodal Control Status with Verification

emii_add_pelvic_event(): Add Composite Pelvic Event Status

emii_add_pelvic_event_with_verification(): Add Pelvic Event Status with Verification

emii_add_pelvic_nodal_event(): Add Pelvic Nodal Event Status

emii_add_pelvic_nodal_event_with_verification(): Add Pelvic Nodal Event Status with Verification

emii_add_progression_free_survival(): Add Progression-Free Survival Status

emii_add_progression_free_survival_with_verification(): Add Progression-Free Survival Status with Verification

emii_add_recurrent_nodes(): Add Recurrent Node Locations

emii_add_systemic_excl_pao(): Add Systemic Control Status (Excluding Para-aortic)

emii_add_systemic_excl_pao_with_verification(): Add Systemic Control Status (Excluding Para-aortic) with Verification

emii_add_trak_absolute(): Calculate Absolute TRAK Values

emii_create_elective_targets_table(): Create Elective Targets Comparison Table

emii_find_outliers(): Identify Extreme Outliers in EMBRACE-II Data

emii_get_clean_data(): Get Clean EMBRACE-II Data for Analysis

emii_get_critical_parameter_status(): Get Status of Critical Parameters

emii_get_dosimetric_parameter_status(): Compare Dosimetric Parameters Between EMBRACE-I and EMBRACE-II

emii_get_gyn_remission_data(): Extract First Remission Timepoint Data from EMBRACE-II Follow-up (Gynecological Examination)

emii_get_lymph_nodes_statd(): Transform Lymph Node Data to Long Format

emii_get_remission_data(): Extract First Remission Timepoint Data from EMBRACE-II Follow-up

emii_get_summary_statistics(): Create Summary Statistics Table for EMBRACE-II Data

emii_verify_all_events(): Verify All Event Calculations

filter_grade_threshold(): Filter Data for Specific CTCAE Grade Events

generateExcelReportsForPatients(): Generate Excel Reports for Patients with Grade-Specific Events

generatePatientExcelReports(): Generate Patient Excel Reports

generate_morbidity_reports(): Generate Excel Reports for Grade-Specific Morbidity Events

get_combined_outcomes(): Combine Outcomes Data from EMBRACE-I and EMBRACE-II

get_latest_side_effects(): Get Latest Side Effects

get_max_of_two_columns(): Get the maximum of two numeric columns for each observation.

get_max_side_effects(): Get Maximum Side Effects

get_nodal_location_patient_summary(): Generate Patient-Level Summary of Nodal Anatomical Locations

get_nodal_location_summary(): Generate Summary Table of Nodal Anatomical Locations

get_recurrence_and_metastases_summary(): Generate Recurrence and Metastases Summary

get_valid_locations(): Get Valid Node Locations

load_combined_embrace(): Load and Combine EMBRACE-I and EMBRACE-II Data

load_embrace_i(): Load and Process EMBRACE-I Data

load_embrace_ii(): Load and Process EMBRACE-II Data

map_column_names(): Map Columns in a Dataframe Based on a Mapping Table

move_row(): Move a Specific Row to a New Position

process_combined_data(): Process and Transform Combined EMBRACE Data

process_emi_data(): Process and Transform EMBRACE-I Data

process_emii_data(): Process and Transform EMBRACE-II Data

process_followup_nodes(): Process Follow-up Node Data

recode_and_convert_all_columns(): Recode and convert columns based on the mapping

recode_and_convert_column(): Recode and convert a single column based on the mapping

recode_factor_levels(): Recode factor levels for multiple columns in a data frame

reorder_columns_based_on_date(): Reorder Columns Based on Assessment Dates

replace_infinite_with_NA(): Replace Infinite values in numeric columns with NA

replace_neg_one_with_NA(): Replace -1 values in numeric columns with NA

reshape_side_effects(): Reshape Side Effects Data

save_embrace_data(): Save Dataframe to RDS and XLSX Formats

save_eviguide_data(): Save EMBRACE Data for EviGuide Analysis

threshold(): Apply Threshold to CTCAE Grade

transpose_sheet_to_wide(): Transpose a long-format sheet to wide-format

update_record(): Update Record and Log Changes