check_oe_bcva_tot_mismatch: Check mismatch between Derived BCVA Total Score & Total BCVA...

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

Check mismatch between Derived BCVA Total Score & Total BCVA Score from Data

Description

This ophthalmology check looks for any mismatch between the Derived Best Corrected Visual Acuity (BCVA) Total Score & reported Total BCVA Score from Data based on OETESTCD = "LOGSCORE" for older studies or OETESTCD = "VACSCORE" for newer studies

Usage

check_oe_bcva_tot_mismatch(OE)

Arguments

OE	Ophtho Dataset with variables USUBJID, OETESTCD, OECAT, OESCAT, OETSTDTL, OESTRESN, OESTAT (if present), OELAT, VISIT, OEDTC

Value

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

Author(s)

Monarch Shah (HackR 2021 Team Eye)

See Also

Other OPHTH: check_ae_aelat(), check_cm_cmlat_prior_ocular(), check_cm_cmlat(), check_oe_bcva_1m_late_early_tot(), check_oe_bcva_4m_late_early_tot(), check_oe_bcva_4m_vs_1m_req(), check_oe_sc_lat_count_fingers(), check_pr_prlat(), check_sc_dm_eligcrit(), check_sc_dm_seyeselc()

Examples

#Using Old Standard, FAIL Case (4m <=19, so 4m + 1m to match with Rave Total)
OE <- data.frame(
   USUBJID = 1,
   OETESTCD = c("NUMLCOR", "NUMLCOR", "LCORCON", "LOGSCORE"),
   OECAT   = rep("BEST CORRECTED VISUAL ACUITY", 4),
   OESCAT   = c("TOTAL", "TOTAL","", ""),
   OETSTDTL  = c("TESTING DISTANCE: 4M", "TESTING DISTANCE: 1M", "", ""),
   OESTRESN = c(18, 0, 30, 48),
   OESTAT= rep("", 4),
   OELOC   = rep("EYE", 4),
   OELAT   = rep("LEFT", 4),
   VISIT   = rep("SCREENING", 4),
   VISITNUM   = rep(99, 4),
   OEDTC = rep("2021-05-19", 4),
   OEDY  = rep(1, 4),
   stringsAsFactors = FALSE)

check_oe_bcva_tot_mismatch(OE)


#Using New Standard, PASS Case

OE <- data.frame(
   USUBJID = 1,
   OETESTCD = c("NUMLCOR", "NUMLCOR", "LCORCON", "VACSCORE"),
   OECAT   = rep("BEST CORRECTED VISUAL ACUITY", 4),
   OESCAT   = c("NORMAL LIGHTING SCORE", "NORMAL LIGHTING SCORE","", ""),
   OETSTDTL  = c("TESTING DISTANCE: 4M", "TESTING DISTANCE: 1M", "", ""),
   OESTRESN = c(22, 0, 30, 52),
   OESTAT= rep("", 4),
   OELOC   = rep("EYE", 4),
   OELAT   = rep("LEFT", 4),
   VISIT   = rep("SCREENING", 4),
   VISITNUM   = rep(99, 4),
   OEDTC = rep("2021-05-19", 4),
   OEDY  = rep(1, 4),
   stringsAsFactors = FALSE)
check_oe_bcva_tot_mismatch(OE)


#Using New Standard, FAIL Case (Total 4m + 1m (As 4m <=19) not equal to CRF Total Score)

OE <- data.frame(
   USUBJID = 1,
   OETESTCD = c("NUMLCOR", "NUMLCOR", "LCORCON", "VACSCORE"),
   OECAT   = "BEST CORRECTED VISUAL ACUITY",
   OESCAT   = c("NORMAL LIGHTING SCORE", "NORMAL LIGHTING SCORE","", ""),
   OETSTDTL  = c("TESTING DISTANCE: 4M", "TESTING DISTANCE: 1M", "", ""),
   OESTRESN = c(17, 12, 0, 27),
   OESTAT= "",
   OELOC   = "EYE",
   OELAT   = "LEFT",
   VISIT   = "SCREENING",
   VISITNUM   = 99,
   OEDTC = "2021-05-19",
   OEDY  = 1,
   stringsAtors = FALSE)
check_oe_bcva_tot_mismatch(OE)


#FAIL Case without optional variable, OESTAT

OE$OESTAT <- NULL
check_oe_bcva_tot_mismatch(OE)


#missing required variable, OETESTCD

OE$OETESTCD <- NULL
check_oe_bcva_tot_mismatch(OE)

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