Creates a PKNCA::PKNCAdata object.
Details
This function creates a standard PKNCAdata object from ADNCA data. It requires the following columns in the ADNCA data:
STUDYID: Study identifier.
PCSPEC: Matrix.
ROUTE: Route of administration.
DRUG: Drug identifier.
USUBJID: Unique subject identifier.
NCA_PROFILE: (Non- standard column). Can be any column, used for filtering the data for NCA
PARAM: Analyte.
AVAL: Analysis value.
AVALU: AVAL unit.
DOSEA: Dose amount.
DOSEU: Dose unit.
AFRLT: Actual time from first dose.
ARRLT: Actual time from reference dose.
NFRLT: Nominal time from first dose.
ADOSEDUR: Duration of dose.
RRLTU: Time unit.
Creating pk concentration data using
format_pkncaconc_data().Creating dosing data using
format_pkncadose_data().Creating
PKNCAconcobject usingPKNCA::PKNCAconc(). with formulaAVAL ~ TIME | STUDYID + PCSPEC + DRUG + USUBJID / PARAM.Creating PKNCAdose object using
PKNCA::PKNCAdose(). with formulaDOSEA ~ TIME | STUDYID + DRUG + USUBJID.Creating PKNCAdata object using
PKNCA::PKNCAdata().Updating units in PKNCAdata object so each analyte has its own unit.
Examples
adnca_data <- data.frame(
STUDYID = rep("STUDY001", 6),
PCSPEC = rep("Plasma", 6),
ROUTE = rep("IV", 6),
DRUG = rep("DrugA", 6),
USUBJID = rep("SUBJ001", 6),
NCA_PROFILE = rep(1, 6),
PARAM = rep("AnalyteA", 6),
AVAL = c(0, 5, 10, 7, 3, 1),
AVALU = rep("ng/mL", 6),
DOSEA = rep(100, 6),
DOSEU = rep("mg", 6),
AFRLT = c(0, 1, 2, 3, 4, 6),
ARRLT = c(0, 1, 2, 3, 4, 6),
NFRLT = c(0, 1, 2, 3, 4, 6),
ADOSEDUR = rep(0.5, 6),
RRLTU = rep("hour", 6)
)
PKNCA_create_data_object(adnca_data)
#> Formula for concentration:
#> AVAL ~ TIME | STUDYID + PCSPEC + DRUG + USUBJID/PARAM
#> <environment: 0x561977c2be48>
#> Data are dense PK.
#> With 1 subjects defined in the 'USUBJID' column.
#> Nominal time column is: NFRLT
#>
#> Data for concentration:
#> STUDYID PCSPEC ROUTE DRUG USUBJID NCA_PROFILE PARAM AVAL AVALU DOSEA
#> STUDY001 Plasma IV DrugA SUBJ001 1 AnalyteA 0 ng/mL 100
#> STUDY001 Plasma IV DrugA SUBJ001 1 AnalyteA 5 ng/mL 100
#> STUDY001 Plasma IV DrugA SUBJ001 1 AnalyteA 10 ng/mL 100
#> STUDY001 Plasma IV DrugA SUBJ001 1 AnalyteA 7 ng/mL 100
#> STUDY001 Plasma IV DrugA SUBJ001 1 AnalyteA 3 ng/mL 100
#> STUDY001 Plasma IV DrugA SUBJ001 1 AnalyteA 1 ng/mL 100
#> DOSEU AFRLT ARRLT NFRLT ADOSEDUR RRLTU
#> mg 0 0 0 0.5 hour
#> mg 1 1 1 0.5 hour
#> mg 2 2 2 0.5 hour
#> mg 3 3 3 0.5 hour
#> mg 4 4 4 0.5 hour
#> mg 6 6 6 0.5 hour
#> conc_groups TIME TIME_DOSE std_route
#> STUDY001\nIV\nDrugA\nSUBJ001\nAnalyteA\nPlasma 0 0 intravascular
#> STUDY001\nIV\nDrugA\nSUBJ001\nAnalyteA\nPlasma 1 0 intravascular
#> STUDY001\nIV\nDrugA\nSUBJ001\nAnalyteA\nPlasma 2 0 intravascular
#> STUDY001\nIV\nDrugA\nSUBJ001\nAnalyteA\nPlasma 3 0 intravascular
#> STUDY001\nIV\nDrugA\nSUBJ001\nAnalyteA\nPlasma 4 0 intravascular
#> STUDY001\nIV\nDrugA\nSUBJ001\nAnalyteA\nPlasma 6 0 intravascular
#> DOSNOA is.excluded.hl is.included.hl REASON exclude_half.life exclude volume
#> 1 FALSE FALSE NA FALSE <NA> NA
#> 1 FALSE FALSE NA FALSE <NA> NA
#> 1 FALSE FALSE NA FALSE <NA> NA
#> 1 FALSE FALSE NA FALSE <NA> NA
#> 1 FALSE FALSE NA FALSE <NA> NA
#> 1 FALSE FALSE NA FALSE <NA> NA
#> duration include_half.life
#> 0 NA
#> 0 NA
#> 0 NA
#> 0 NA
#> 0 NA
#> 0 NA
#> Formula for dosing:
#> DOSEA ~ TIME_DOSE | STUDYID + DRUG + USUBJID
#> Nominal time column is: NFRLT
#>
#> Data for dosing:
#> STUDYID PCSPEC ROUTE DRUG USUBJID NCA_PROFILE PARAM AVAL AVALU DOSEA
#> STUDY001 Plasma IV DrugA SUBJ001 1 AnalyteA 0 ng/mL 100
#> DOSEU AFRLT ARRLT NFRLT ADOSEDUR RRLTU
#> mg 0 0 0 0.5 hour
#> conc_groups TIME TIME_DOSE std_route
#> STUDY001\nIV\nDrugA\nSUBJ001\nAnalyteA\nPlasma 0 0 intravascular
#> DOSNOA exclude
#> 1 <NA>
#>
#> With 1 rows of interval specifications.
#> With units
#> With imputation: NA
#> No options are set differently than default.