correct.loq: Impute Concentrations Below the Limit of Quantitation

In qpNCA: Noncompartmental Pharmacokinetic Analysis by qPharmetra

Description

Imputes LOQ values according to the chosen LOQ substitution rule.

Usage

correct.loq(
  x,
  by = character(0),
  nomtimevar = "ntad",
  timevar = "time",
  depvar = "dv",
  bloqvar = "bloq",
  loqvar = "loq",
  loqrule = 1
)

Arguments

x	input dataset name contains all uncorrected data, including LOQ
by	column names in x indicating grouping variables
nomtimevar	variable name containing the nominal sampling time after dose
timevar	variable name containing the actual sampling time after dose
depvar	variable name containing the dependent variable (e.g., concentration)
bloqvar	variable name containing the BLOQ flag (0: no, 1: yes)
loqvar	variable name containing the LOQ value
loqrule	rule number to be applied to the LOQ values in the curve. x$loqrule overrides if provided 1: 0 before first measurable concentration (FMC); NA after FMC 2: 0 before FMC; 0 after FMC 3: 0 before FMC; 0.5xLOQ for first consecutive LOQ after FMC, NA for other LOQ 4: 0 before FMC; 0.5xLOQ for first consecutive LOQ after FMC, 0 for other LOQ

Details

Imputations will be applied to the original depvar (no new concentration variable will be created).

Value

A dataset with imputed BLOQ concentrations using the chosen imputation rule

Examples

library(magrittr)
library(dplyr)
library(qpNCA)
x <- Theoph
ntad <- c(0,0.25,0.5,1,2,4,5,7,9,12,24)
for(i in 1:nrow(x)){
  time  <- x$Time[[i]]
  delta <- abs(ntad - time)
  best  <- min(delta)
  index <- match(best, delta)
  nom   <- ntad[[index]]
  x$ntad[[i]] <- nom
}
rm(list = c('time','delta','best','index','nom', 'i','ntad'))
x %<>% rename(time = Time, dv = conc)
x %<>% mutate(bloq = ifelse(dv==0,1,0), loq = 0.01, tad = time, loqrule = 1, 
              subject=as.numeric(Subject), ntad=as.numeric(ntad))
x %>% head
x %<>% correct.loq('subject')
x %>%  head

qpNCA documentation built on Aug. 16, 2021, 5:08 p.m.