BiostatsUHNplus (version 1.0.4)

rm_ae_all_g3p: Outputs R Markdown table of all and grade 3+ adverse events by comparison group

Description

Outputs R Markdown table of all and grade 3+ adverse events by comparison group

Usage

rm_ae_all_g3p(
  comp = NULL,
  presDate,
  cutDate,
  boundDate = NULL,
  subjID,
  subjID_ineligText = NULL,
  baseline_datasets,
  ae_dataset,
  ineligVar = NULL,
  ineligVarText = NULL,
  genderVar,
  enrolDtVar,
  ae_detailVar,
  ae_categoryVar = NULL,
  ae_severityVar,
  ae_onsetDtVar,
  ae_detailOtherText = NULL,
  ae_detailOtherVar = NULL,
  ae_verbatimVar = NULL,
  ae_attribVars = NULL,
  ae_attribVarsName = NULL,
  ae_attribVarText = NULL,
  related_ae = FALSE,
  numSubj = NULL
)

Value

R Markdown table of all and grade 3+ adverse events by treatment arm

Arguments

comp

baseline comparison group. For example, cohort (if provided)

presDate

presentation date (i.e. 17NOV2023)

cutDate

recent cutoff date for AEs (i.e. 31AUG2023)

boundDate

lower bound cutoff date for AEs (if provided)

subjID

key identifier field for participant ID in data sets

subjID_ineligText

character text that denotes participant IDs to exclude. For example, c("New Subject") (if provided)

baseline_datasets

list of data frames that contain baseline participant characteristics. For example, list(enrollment_DF,demography_DF,ineligibility_DF)

ae_dataset

data frame that contains subject AEs

ineligVar

field that denotes participant ineligibility (if provided)

ineligVarText

character text that denotes participant ineligibility. For example, c("Yes", "Y") (if provided)

genderVar

field that denotes participant gender

enrolDtVar

field that denotes participant enrollment date (i.e. 10MAY2021)

ae_detailVar

field that denotes participant AE detail (lowest level term)

ae_categoryVar

field that denotes participant AE category (system organ class)

ae_severityVar

field that denotes participant AE severity grade (numeric)

ae_onsetDtVar

field that denotes participant AE onset date

ae_detailOtherText

character text that denotes referencing verbatim AE field. For example, c("Other, specify", "OTHER") (if provided)

ae_detailOtherVar

field that denotes participant AE detail other (if provided)

ae_verbatimVar

field that denotes participant AE detail verbatim (if provided)

ae_attribVars

field(s) that denotes attribution to intervention under study.
For example, c("CTC_AE_ATTR_SCALE","CTC_AE_ATTR_SCALE_1") (if provided)

ae_attribVarsName

character text that denotes name of interventions under study. For example, c("Drug 1", "Drug 2") (if provided)

ae_attribVarText

character text that denotes related attribution. For example c("Definite", "Probable", "Possible") (if provided)

related_ae

boolean that denotes if summary is for related AEs. Default is False.

numSubj

vector to override value for number of participants in summary (if provided)

Examples

data("enrollment", "demography", "ineligibility", "ae");
rm_ae_all_g3p(
  comp="COHORT",
  cutDate="31AUG2020",
  boundDate=NULL,subjID="Subject",subjID_ineligText=c("New Subject","Test"),
  baseline_datasets=list(enrollment,demography,ineligibility),
  ae_dataset=ae,ineligVar="INELIGIBILITY_STATUS",ineligVarText=c("Yes","Y"),
  genderVar="GENDER_CODE",enrolDtVar="ENROL_DATE_INT",ae_detailVar="ae_detail",
  ae_severityVar="AE_SEV_GD",
  ae_onsetDtVar="AE_ONSET_DT_INT",ae_detailOtherText="Other, specify",
  ae_detailOtherVar="CTCAE5_LLT_NM",ae_verbatimVar="AE_VERBATIM_TRM_TXT",
  ae_attribVars=c("CTC_AE_ATTR_SCALE","CTC_AE_ATTR_SCALE_1"),
  ae_attribVarsName=c("Drug 1","Drug 2"),
  ae_attribVarText=c("Definite", "Probable", "Possible"),
  numSubj=c(4,4,3,4))