A C D E F H I J K L M N O P R S T U V W misc
dataquieR-package | The 'dataquieR' package about Data Quality in Epidemiological Research |
acc_distributions | Function to plot histograms added by empirical cumulative distributions for subgroups |
acc_end_digits | Extension of acc_shape_or_scale to examine uniform distributions of end digits |
acc_loess | Smoothes and plots adjusted longitudinal measurements |
acc_margins | Function to estimate marginal means, see emmeans::emmeans |
acc_multivariate_outlier | Function to calculate and plot Mahalanobis distances |
acc_robust_univariate_outlier | Function to identify univariate outliers by four different approaches |
acc_shape_or_scale | Function to compare observed versus expected distributions |
acc_univariate_outlier | Function to identify univariate outliers by four different approaches |
acc_varcomp | Estimates variance components |
as.data.frame.dataquieR_resultset | Convert a full 'dataquieR' report to a 'data.frame' |
as.list.dataquieR_resultset | Convert a full 'dataquieR' report to a 'list' |
COMPATIBILITY | Requirement levels of certain metadata columns |
com_item_missingness | Summarize missingness columnwise (in variable) |
com_segment_missingness | Summarizes missingness for individuals in specific segments |
com_unit_missingness | Counts all individuals with no measurements at all |
CONTRADICTIONS | Well-known metadata column names, names of metadata columns |
contradiction_functions | contradiction_functions |
contradiction_functions_descriptions | description of the contradiction functions |
con_contradictions | Checks user-defined contradictions in study data |
con_detection_limits | con_detection_limits |
con_inadmissible_categorical | Detects variable levels not specified in metadata |
con_limit_deviations | Detects variable values exceeding limits defined in metadata |
dataquieR | The 'dataquieR' package about Data Quality in Epidemiological Research |
dataquieR_result | Print a dataquieR result returned by pipeline_vectorized |
dataquieR_resultset | Internal constructor for the internal class dataquieR_resultset. |
dataquieR_resultset_verify | Verify an object of class dataquieR_resultset |
DATA_ENTRY_TYPE | Well-known metadata column names, names of metadata columns |
DATA_TYPE | Well-known metadata column names, names of metadata columns |
DATA_TYPES | Data Types |
DATA_TYPES_OF_R_TYPE | All available data types, mapped from their respective R types |
DATETIME | Data Types |
datetime | Data Types |
DECIMALS | Well-known metadata column names, names of metadata columns |
DETECTION_LIMITS | Well-known metadata column names, names of metadata columns |
DETECTION_LIMIT_LOW | Well-known metadata column names, names of metadata columns |
DETECTION_LIMIT_UP | Well-known metadata column names, names of metadata columns |
dimensions | Names of DQ dimensions |
DISTRIBUTION | Well-known metadata column names, names of metadata columns |
DISTRIBUTIONS | All available probability distributions for acc_shape_or_scale |
dq_report | Generate a full DQ report |
dq_report_by | Generate a stratified full DQ report |
enum | Data Types |
FLOAT | Data Types |
float | Data Types |
HARD_LIMITS | Well-known metadata column names, names of metadata columns |
HARD_LIMIT_LOW | Well-known metadata column names, names of metadata columns |
HARD_LIMIT_UP | Well-known metadata column names, names of metadata columns |
INCL_HARD_LIMIT_LOW | Well-known metadata column names, names of metadata columns |
INCL_HARD_LIMIT_UP | Well-known metadata column names, names of metadata columns |
INCL_SOFT_LIMIT_LOW | Well-known metadata column names, names of metadata columns |
INCL_SOFT_LIMIT_UP | Well-known metadata column names, names of metadata columns |
INTEGER | Data Types |
integer | Data Types |
JUMP_LIST | Well-known metadata column names, names of metadata columns |
KEY_DATETIME | Well-known metadata column names, names of metadata columns |
KEY_DEVICE | Well-known metadata column names, names of metadata columns |
KEY_OBSERVER | Well-known metadata column names, names of metadata columns |
KEY_STUDY_SEGMENT | Well-known metadata column names, names of metadata columns |
LABEL | Well-known metadata column names, names of metadata columns |
LONG_LABEL | Well-known metadata column names, names of metadata columns |
MISSING_LIST | Well-known metadata column names, names of metadata columns |
numeric | Data Types |
OPTIONAL | Requirement levels of certain metadata columns |
pipeline_recursive_result | Function to convert a pipeline result data frame to named encapsulated lists |
pipeline_vectorized | Call (nearly) one "Accuracy" function with many parameterizations at once automatically |
prep_add_to_meta | Support function to augment metadata during data quality reporting |
prep_check_meta_names | Checks the validity of meta data w.r.t. the provided column names |
prep_clean_labels | Support function to scan variable labels for applicability |
prep_create_meta | Support function to create data.frames of metadata |
prep_datatype_from_data | Get data types from data |
prep_map_labels | Support function to allocate labels to variables |
prep_min_obs_level | Support function to identify the levels of a process variable with minimum number of observations |
prep_pmap | Support function for a parallel 'pmap' |
prep_prepare_dataframes | Prepare and verify study data with metadata |
prep_study2meta | Guess a meta data frame from study data. |
print.dataquieR_result | Print a dataquieR result returned by pipeline_vectorized |
print.dataquieR_resultset | Generate a RMarkdown-based report from a dataquieR report |
pro_applicability_matrix | Function to check applicability of DQ functions on study data |
RECODE | Well-known metadata column names, names of metadata columns |
RECOMMENDED | Requirement levels of certain metadata columns |
REQUIRED | Requirement levels of certain metadata columns |
SOFT_LIMITS | Well-known metadata column names, names of metadata columns |
SOFT_LIMIT_LOW | Well-known metadata column names, names of metadata columns |
SOFT_LIMIT_UP | Well-known metadata column names, names of metadata columns |
SPLIT_CHAR | Character used by default as a separator in meta data such as missing codes |
STRING | Data Types |
string | Data Types |
summary.dataquieR_resultset | Summarize a dataquieR report |
TECHNICAL | Requirement levels of certain metadata columns |
UNKNOWN | Requirement levels of certain metadata columns |
util_app_cd | utility function for the applicability of contradiction checks |
util_app_dc | utility function for the applicability of of distribution plots |
util_app_dl | utility function to test for applicability of detection limits checks |
util_app_ed | utility function for the applicability of of end digits preferences checks |
util_app_iac | utility function for the applicability of categorical admissibility |
util_app_iav | utility function for the applicability of numeric admissibility |
util_app_im | utility function applicability of item missingness |
util_app_loess | utility function for applicability of LOESS smoothed time course plots |
util_app_mar | utility function to test for applicability of marginal means plots |
util_app_mol | utility function applicability of multivariate outlier detection |
util_app_ol | utility function for the applicability of outlier detection |
util_app_sm | utility function applicability of segment missingness |
util_app_sos | utility function applicability of distribution function's shape or scale check |
util_app_vc | utility applicability variance components |
util_assign_levlabs | utility function to assign labels to levels |
util_as_numeric | Convert factors to label-corresponding numeric values |
util_backtickQuote | utility function to set string in backticks |
util_check_data_type | Support function to verify the data type of a value |
util_check_one_unique_value | Check for one value only |
util_compare_meta_with_study | Compares study data data types with the ones expected according to the metadata |
util_correct_variable_use | Check referred variables |
util_correct_variable_use2 | Check referred variables |
util_count_codes | count realizations of missing codes of any class |
util_count_code_classes | count distinct realizations of missing codes of a specific class |
util_count_NA | Support function to count number of 'NA's |
util_dichotomize | utility function to dichotomize variables |
util_dist_selection | Utility function distribution-selection |
util_empty | Test, if values of x are empty, i.e. NA or whitespace characters |
util_ensure_suggested | Support function to stop, if an optional package is not installed |
util_error | Produce an error message with a useful short stack trace. Then it stops the execution. |
util_find_external_functions_in_stacktrace | Find externally called function in the stack trace |
util_find_first_externally_called_functions_in_stacktrace | Find first externally called function in the stack trace |
util_fix_rstudio_bugs | RStudio crashes on parallel calls in some versions on Darwin based operating systems with R 4 |
util_get_code_list | Fetch a missing code list from the metadata |
util_get_var_att_names_of_level | Get variable attributes of a certain provision level |
util_heatmap_1th | Utility Function Heatmap with 1 Threshold |
util_hubert | utility function for the outliers rule of Huber et al. |
util_interpret_limits | Utility function to interpret mathematical interval notation |
util_is_integer | Check for integer values |
util_looks_like_missing | Check for repetitive values using the digits 8 or 9 only |
util_make_function | Make a function capturing errors and other conditions for parallelization |
util_map_all | Maps label column meta data on study data variable names |
util_map_labels | Support function to allocate labels to variables |
util_no_value_labels | Select really numeric variables |
util_observations_in_subgroups | Utility function observations in subgroups |
util_only_NAs | identify 'NA'-only variables |
util_parse_assignments | Utility function to parse assignments |
util_par_pmap | Utility function parallel version of 'purrr::pmap' |
util_prepare_dataframes | util_prepare_dataframes |
util_replace_codes_by_NA | Utility function to replace missing codes by 'NA's |
util_set_dQuoteString | Utility function to put strings in quotes |
util_set_sQuoteString | Utility function single quote string |
util_sigmagap | Utility function outliers according to the rule of Huber et al. |
util_sixsigma | Utility function for six sigma deviations rule |
util_tukey | Utility function Tukey outlier rule |
util_validate_known_meta | Utility function verifying syntax of known metadata columns |
util_warning | Produce a warning message with a useful short stack trace. |
util_warn_unordered | Warn about a problem in 'varname', if 'x' has no natural order |
VALUE_LABELS | Well-known metadata column names, names of metadata columns |
VARATT_REQUIRE_LEVELS | Requirement levels of certain metadata columns |
variable | Data Types |
variable attribute | Well-known metadata column names, names of metadata columns |
variable list | Data Types |
variable roles | Variable roles can be one of the following: |
VARIABLE_ORDER | Well-known metadata column names, names of metadata columns |
VARIABLE_ROLE | Well-known metadata column names, names of metadata columns |
VARIABLE_ROLES | Variable roles can be one of the following: |
VAR_NAMES | Well-known metadata column names, names of metadata columns |
WELL_KNOWN_META_VARIABLE_NAMES | Well-known metadata column names, names of metadata columns |
.variable_arg_roles | Variable-argument roles |