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Documentation for package ‘admiral’ version 0.6.3

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A C D E F G I L N P Q S T U V W misc

-- A --

adae Adverse Event Analysis Dataset
adcm Concomitant Medication Analysis Dataset
adex Exposure Analysis Dataset
adsl Subject Level Analysis Dataset
advs Vital Signs Analysis Dataset
ae_event Pre-Defined Time-to-Event Source Objects
ae_gr1_event Pre-Defined Time-to-Event Source Objects
ae_gr2_event Pre-Defined Time-to-Event Source Objects
ae_gr35_event Pre-Defined Time-to-Event Source Objects
ae_gr3_event Pre-Defined Time-to-Event Source Objects
ae_gr4_event Pre-Defined Time-to-Event Source Objects
ae_gr5_event Pre-Defined Time-to-Event Source Objects
ae_ser_event Pre-Defined Time-to-Event Source Objects
ae_sev_event Pre-Defined Time-to-Event Source Objects
ae_wd_event Pre-Defined Time-to-Event Source Objects
assert_character_scalar Is an Argument a Character Scalar (String)?
assert_character_vector Is an Argument a Character Vector?
assert_data_frame Is an Argument a Data Frame?
assert_filter_cond Is an Argument a Filter Condition?
assert_has_variables Does a Dataset Contain All Required Variables?
assert_integer_scalar Is an Argument an Integer Scalar?
assert_list_element Is an Element of a List of Lists/Classes Fulfilling a Condition?
assert_list_of Is an Argument a List of Objects of a Specific S3 Class?
assert_logical_scalar Is an Argument a Logical Scalar (Boolean)?
assert_numeric_vector Is an Argument a Numeric Vector?
assert_one_to_one Is There a One to One Mapping between Variables?
assert_order_vars Is an Argument a List of Order Variables?
assert_param_does_not_exist Asserts That a Parameter Does Not Exist in the Dataset
assert_s3_class Is an Argument an Object of a Specific S3 Class?
assert_symbol Is an Argument a Symbol?
assert_unit Asserts That a Parameter is Provided in the Expected Unit
assert_valid_queries Verify if a Dataset Has the Required Format as Queries Dataset.
assert_vars Is an Argument a List of Variables?
assert_varval_list Is an Argument a Variable-Value List?

-- C --

call_derivation Call a Single Derivation Multiple Times
censor_source Create a 'censor_source' Object
compute_bmi Compute Body Mass Index (BMI)
compute_bsa Compute Body Surface Area (BSA)
compute_dtf Derive the Date Imputation Flag
compute_duration Derive Duration
compute_map Compute Mean Arterial Pressure (MAP)
compute_qtc Compute Corrected QT
compute_rr Compute RR Interval From Heart Rate
compute_tmf Derive the Time Imputation Flag
convert_blanks_to_na Convert Blank Strings Into NAs
convert_blanks_to_na.character Convert Blank Strings Into NAs
convert_blanks_to_na.data.frame Convert Blank Strings Into NAs
convert_blanks_to_na.default Convert Blank Strings Into NAs
convert_blanks_to_na.list Convert Blank Strings Into NAs
convert_date_to_dtm Convert a Date into a Datetime Object
convert_dtc_to_dt Convert a Date Character Vector into a Date Object
convert_dtc_to_dtm Convert a Date Character Vector into a Datetime Object

-- D --

dataset_vignette Output a Dataset in a Vignette in the admiral Format
death_event Pre-Defined Time-to-Event Source Objects
default_qtc_paramcd Get Default Parameter Code for Corrected QT
derive_agegr_ema Derive Age Groups
derive_agegr_fda Derive Age Groups
derive_baseline Derive Baseline
derive_derived_param Adds a Parameter Computed from the Analysis Value of Other Parameters
derive_disposition_dt Derive a Disposition Date
derive_disposition_reason Derive a Disposition Reason at a Specific Timepoint
derive_disposition_status Derive a Disposition Status at a Specific Timepoint
derive_extreme_flag Add a Variable Flagging the First or Last Observation Within Each By Group
derive_last_dose Derive Last Dose Date(-time)
derive_obs_number Adds a Variable Numbering the Observations Within Each By Group
derive_params_exposure Add an Aggregated Parameter and Derive the Associated Start and End Dates
derive_param_bmi Adds a Parameter for BMI
derive_param_bsa Adds a Parameter for BSA (Body Surface Area) Using the Specified Method
derive_param_doseint Adds a Parameter for Dose Intensity
derive_param_exposure Add an Aggregated Parameter and Derive the Associated Start and End Dates
derive_param_map Adds a Parameter for Mean Arterial Pressure
derive_param_qtc Adds a Parameter for Corrected QT
derive_param_rr Adds a Parameter for Derived RR
derive_param_tte Derive a Time-to-Event Parameter
derive_summary_records Add New Records Within By Groups Using Aggregation Functions
derive_vars_aage Derive Analysis Age
derive_vars_atc Derive ATC Class Variables
derive_vars_disposition_reason Derive a Disposition Reason at a Specific Timepoint
derive_vars_dt Derive/Impute a Date from a Date Character Vector
derive_vars_dtm Derive/Impute a Datetime from a Date Character Vector
derive_vars_dtm_to_dt Derive Date Variables from Datetime Variables
derive_vars_dtm_to_tm Derive Time Variables from Datetime Variables
derive_vars_duration Derive Duration
derive_vars_dy Derive Relative Day Variables
derive_vars_last_dose Derive Last Dose
derive_vars_query Derive Query Variables
derive_vars_suppqual Join Supplementary Qualifier Variables into the Parent SDTM Domain
derive_vars_transposed Derive Variables by Transposing and Merging a Second Dataset
derive_var_ady Derive Analysis Study Day
derive_var_aendy Derive Analysis End Relative Day
derive_var_agegr_ema Derive Age Groups
derive_var_agegr_fda Derive Age Groups
derive_var_age_years Derive Age in Years
derive_var_anrind Derive Reference Range Indicator
derive_var_astdy Derive Analysis Start Relative Day
derive_var_atirel Derive Time Relative to Reference
derive_var_base Derive Baseline Variables
derive_var_basec Derive BASEC Variable
derive_var_basetype Derive BASETYPE Variable
derive_var_chg Derive Change from Baseline
derive_var_disposition_dt Derive a Disposition Date
derive_var_disposition_status Derive a Disposition Status at a Specific Timepoint
derive_var_dthcaus Derive Death Cause
derive_var_extreme_flag Add a Variable Flagging the First or Last Observation Within Each By Group
derive_var_last_dose_amt Derive Last Dose Amount
derive_var_last_dose_date Derive Last Dose Date-Time
derive_var_last_dose_grp Derive Last Dose with User-Defined Groupings
derive_var_lstalvdt Derive Last Known Alive Date
derive_var_obs_number Adds a Variable Numbering the Observations Within Each By Group
derive_var_ontrtfl Derive On-Treatment Flag Variable
derive_var_pchg Derive Percent Change from Baseline
derive_var_trtdurd Derive Total Treatment Duration (Days)
derive_var_trtedtm Derive Datetime of Last Exposure to Treatment
derive_var_trtsdtm Derive Datetime of First Exposure to Treatment
derive_var_worst_flag Adds a Variable Flagging the Maximal / Minimal Value Within a Group of Observations
derive_worst_flag Adds a Variable Flagging the Maximal / Minimal Value Within a Group of Observations
dthcaus_source Create a 'dthcaus_source' Object

-- E --

event_source Create an 'event_source' Object
expect_dfs_equal Expectation: Are Two Datasets Equal?
extend_source_datasets Add By Groups to All Datasets if Necessary
extract_duplicate_records Extract Duplicate Records
extract_unit Extract Unit From Parameter Description
ex_single Single Dose Exposure Dataset

-- F --

filter_date_sources Select the First or Last Date from Several Sources
filter_extreme Filter the First or Last Observation for Each By Group
filter_if Optional Filter
format_eoxxstt_default Default Format for Disposition Status
format_reason_default Default Format for the Disposition Reason

-- G --

get_duplicates_dataset Get Duplicate Records that Lead to a Prior Error
get_many_to_one_dataset Get Many to One Values that Led to a Prior Error
get_one_to_many_dataset Get One to Many Values that Led to a Prior Error

-- I --

impute_dtc Impute Partial Date(-time) Portion of a "-DTC" Variable

-- L --

lastalive_censor Pre-Defined Time-to-Event Source Objects
list_all_templates List All Available ADaM Templates
lstalvdt_source Create an 'lstalvdt_source' object

-- N --

negate_vars Negate List of Variables

-- P --

params Create a Set of Parameters
print.tte_source Print 'tte_source' Objects

-- Q --

queries Queries Dataset

-- S --

signal_duplicate_records Signal Duplicate Records
suppress_warning Suppress Specific Warnings

-- T --

tte_source Create a 'tte_source' Object

-- U --

use_ad_template Open an ADaM Template Script

-- V --

vars2chr Turn a List of Quosures into a Character Vector

-- W --

warn_if_inconsistent_list Warn If Two Lists are Inconsistent
warn_if_invalid_dtc Warn If a Vector Contains Unknown Datetime Format
warn_if_vars_exist Warn If a Variable Already Exists

-- misc --

+-method Add Methods