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Table of frequencies and proportions of events by severity categories

aeseverity.Rd

aeseverity is used to plot a table of AE summary by severity level and body system class for each arm using the following summary statistics:

  • N: Frequency (number of participants with at least one event for each severity level and body system class)

  • %: Proportions (number of participants with at least one event for each severity level and body system class relative to number of participants at risk)

  • n: Number of adverse events for each severity level and body system class

Note that aeseverity can only take up to 5 severity levels for the severity variable.

Usage

aeseverity(
  data,
  arm_levels,
  severity_levels = NULL,
  body_system_class = "body_system_class",
  severity = "severity",
  id = "id",
  arm = "arm",
  n_events = TRUE,
  arm_names = NULL,
  severity_names = NULL,
  proportions_dp = 1,
  save_image_path = NULL,
  save_docx_path = NULL
)

Arguments

data

data frame with adverse_event, body_system_class, severity, id and arm columns

arm_levels

vector of factor levels in arm variable

severity_levels

vector of severity levels in ascending order if severity is not ordered factor

body_system_class

name of body_system_class column

severity

name of severity column

id

name of id column

arm

name of arm column

n_events

a logical value whether to include number of events for each body system class and severity

arm_names

vector of names for each arm in arm variable

severity_names

vector of names for each severity in severity variable

proportions_dp

number of decimal places for proportions

save_image_path

file path to save table as image

save_docx_path

file path to save table as docx

Value

flextable of frequencies and proportions of events by severity categories

Examples

library(flextable)
set_flextable_defaults(font.family="sans")
df2$aebodsys <- as.factor(df2$aebodsys)
df2$severity <- ordered(df2$severity, c("Mild", "Moderate", "Severe"))
aeseverity(df2, arm_levels=c("Intervention","Placebo"), body_system_class="aebodsys", proportions_dp=2)