Wrapper for P-value calculations

Ensures the input to the statistical function is in the proper format, and enruse the output is formated to the need of the AMNOG workflow.

Usage

p_val(
  dat,
  event_index,
  cell_index,
  treatment_var,
  treatment_refval,
  subjectid_var,
  safe_mode = FALSE,
  threshold_lower = 5,
  threshold_upper = 200,
  ...
)

Arguments

dat

data.table. The analysis data set.

event_index

vector of integers that index the rows in dat that match the definition of an 'event'. Matching is done via the INDEX_ column in dat.

cell_index

A vector of integers referencing the rows of dat (as specified by the INDEX_ column in dat) that match the population to be analyzed. See the "Endpoint Events" vignette in ramnog for more information.

treatment_var

character. The name of the treatment variable in the data.

treatment_refval

character. The reference value of the treatment variable in the data.

subjectid_var

character. Name of the subject identifier variable in the data (default is "USUBJID").

safe_mode

Boolean determing if the function should fail when given input that cannot be calculated (safe_mode = TRUE), or if it should silently return a NA value (default).

threshold_lower

numeric. Lower threshold limit for selecting Fischer vs. Barnard.

threshold_upper

numeric. Upper threshold limit for selecting Fischer vs. Barnard.

...

Optional parameters.

Value

A data.table containing p-value statistics.