check_lb_lbstresc_char: Check LBORRES/LBSTRESC populated with number beginning with...

In sdtmchecks: Data Quality Checks for Study Data Tabulation Model (SDTM) Datasets

Check LBORRES/LBSTRESC populated with number beginning with character '>' or '<', which will yield missing AVAL in ADaM and records will be omitted in analyses such as Hy's Law

Description

This check looks for missing numeric standardized finding (LBSTRESN) when original finding (LBORRES) and character standardized finding (LBSTRESC) are not missing and LBORRES/LBSTRESC populated with number beginning with character '>' or '<'

Usage

check_lb_lbstresc_char(LB)

Arguments

LB	Lab SDTM dataset with variables USUBJID, LBTEST, LBDTC, LBORRES, LBORRESU, LBSTRESN, LBSTRESC

Value

boolean value if check failed or passed with 'msg' attribute if the test failed

Author(s)

Vira Vrakina

Examples

 LB <- data.frame(
 USUBJID = c("Patient 1","Patient 2","Patient 3"),
 LBTEST   = "Test A",
 LBDTC   = "2017-01-01",
 LBORRES = c("5","3","7"),
 LBORRESU = rep("mg",3),
 LBSTRESC  = c("5","3","7"),
 LBSTRESN  = c(5,3,7),
 stringsAsFactors = FALSE
)

check_lb_lbstresc_char(LB)

 LB <- data.frame(
 USUBJID = c("Patient 1","Patient 2","Patient 3"),
 LBTEST   = rep("Test A", 3),
 LBDTC   = "2017-01-01",
 LBORRES = c("5","3","<7"),
 LBORRESU = rep("mg",3),
 LBSTRESC  = c("5","3","<7"),
 LBSTRESN  = c(5,3,NA),
 stringsAsFactors = FALSE
)

check_lb_lbstresc_char(LB)

LB <- data.frame(
 USUBJID = c("Patient 1","Patient 2","Patient 3"),
 LBTEST   = rep("Test A", 3),
 LBDTC   = rep("2017-01-01", 3),
 LBORRES = c("5","BLQ","<7"),
 LBORRESU = rep("mg",3),
 LBSTRESC  = c("5","BLQ","<7"),
 LBSTRESN  = c(5,NA,NA),
 stringsAsFactors = FALSE
)

check_lb_lbstresc_char(LB)

sdtmchecks documentation built on Sept. 11, 2024, 9:34 p.m.