incidence_rate.md
In tern: Create Common TLGs Used in Clinical Trials

control_incidence_rate works with customized parameters

Code
  res
Output
  $conf_level
  [1] 0.9

  $conf_type
  [1] "exact"

  $input_time_unit
  [1] "month"

  $num_pt_year
  [1] 100

s_incidence_rate works as expected with healthy input

Code
  res
Output
  $person_years
  [1] 9.058333
  attr(,"label")
  [1] "Total patient-years at risk"

  $n_events
  [1] 4
  attr(,"label")
  [1] "Number of adverse events observed"

  $rate
  [1] 44.15823
  attr(,"label")
  [1] "AE rate per 100 patient-years"

  $rate_ci
  [1]  19.40154 100.50487
  attr(,"label")
  [1] "90% CI"

  $n_unique
  [1] 4
  attr(,"label")
  [1] "Total number of patients with at least one adverse event"

  $n_rate
  [1]  4.00000 44.15823
  attr(,"label")
  [1] "Number of adverse events observed (AE rate per 100 patient-years)"

a_incidence_rate works with default arguments

Code
  res
Output
  RowsVerticalSection (in_rows) object print method:
  ----------------------------
        row_name formatted_cell indent_mod
  1 person_years          108.7          0
  2     n_events              4          0
  3         rate           3.68          0
  4      rate_ci   (0.07, 7.29)          0
  5     n_unique              4          0
  6       n_rate        4 (3.7)          0
                                                            row_label
  1                                       Total patient-years at risk
  2                                 Number of adverse events observed
  3                                     AE rate per 100 patient-years
  4                                                            95% CI
  5          Total number of patients with at least one adverse event
  6 Number of adverse events observed (AE rate per 100 patient-years)

a_incidence_rate works with customized arguments

Code
  res
Output
  RowsVerticalSection (in_rows) object print method:
  ----------------------------
    row_name formatted_cell indent_mod
  1   n_rate   4.00 (44.16)          3
  2 n_unique           4.00          0
                                                   row_label
  1         Total number of applicable adverse events (rate)
  2 Total number of patients with at least one adverse event

estimate_incidence_rate works as expected with default input

Code
  res
Output
                                            A               B       
                                          (N=3)           (N=3)     
  ——————————————————————————————————————————————————————————————————
  Total patient-years at risk             45.8             62.9     
  Number of adverse events observed         1               3       
  AE rate per 100 patient-years           2.18             4.77     
  95% CI                              (-2.10, 6.46)   (-0.63, 10.17)

estimate_incidence_rate works as expected with custom input

Code
  res
Output
                                                                  A              B      
                                                                (N=3)          (N=3)    
  ——————————————————————————————————————————————————————————————————————————————————————
        Total number of applicable adverse events (rate)     1.00 (26.20)   3.00 (57.23)
  Total number of patients with at least one adverse event       1.00           3.00

estimate_incidence_rate works with default arguments with summarize = TRUE

Code
  res
Output
                                                A                B       
                                              (N=3)            (N=3)     
  ———————————————————————————————————————————————————————————————————————
  X - Total patient-years at risk              10.1             39.5     
  X - Number of adverse events observed         1                2       
  X - AE rate per 100 patient-years            9.90             5.06     
  X - 95% CI                              (-9.50, 29.31)   (-1.95, 12.08)
  Y - Total patient-years at risk              35.7             23.4     
  Y - Number of adverse events observed         0                1       
  Y - AE rate per 100 patient-years            0.00             4.27     
  Y - 95% CI                               (0.00, 0.00)    (-4.10, 12.65)

estimate_incidence_rate works with custom arguments with summarize = TRUE

Code
  res
Output
                                                                           A         B   
                                                                         (N=3)     (N=3) 
  ———————————————————————————————————————————————————————————————————————————————————————
  Total patient-years at risk                                            45.8      62.9  
  Number of adverse events observed                                        1         3   
  AE rate per 100 patient-years                                          2.18      4.77  
  X                                                                                      
    Total number of patients with at least one adverse event               1         2   
    Number of adverse events observed (AE rate per 100 patient-years)   1 (9.9)   2 (5.1)
  Y                                                                                      
    Total number of patients with at least one adverse event               0         1   
    Number of adverse events observed (AE rate per 100 patient-years)   0 (0.0)   1 (4.3)