clint_PREJAGS: Clint Level-4 PREJAGS arguments

clint_PREJAGSR Documentation

Clint Level-4 PREJAGS arguments

Description

The arguments given to JAGS for the tested compound during level-4 processing of mass spectrometry measurements of intrinsic hepatic clearance (Clint) for cryopreserved pooled human hepatocytes. Chemicals were per- and poly-fluorinated alkyl substance (PFAS) samples. The experiments were led by Dr.s Marci Smeltz and Barbara Wetmore \insertCitesmeltz2023plasmainvitroTKstats. This list is overwritten for each tested compound. Therefore, only contains arguments given to JAGS for the last tested compound.

Usage

clint_PREJAGS

Format

A named list with 26 elements:

obs

Response of the "Cvst" sample types for the tested compound

Test.Nominal.Conc

Unique Test.Nominal.Conc values (expected initial concentration) of "Cvst" sample types

Num.cal

Unique number of Calibration values

Num.obs

Number of Response of the "Cvst" sample types for the tested compound

obs.conc

Indices of the Test.Nominal.Conc values that corresponds to the "Cvst" sample types' Test.Nominal.Conc

obs.time

Time of the "Cvst" sample types for the tested compound

obs.cal

Indices of the unique "Cvst" Calibration values that corresponds to the "Cvst" sample types' Calibration

obs.Dilution.Factor

Dilution Factor of the "Cvst" sample types for the tested compound (number of times the sample was diluted)

Num.blank.obs

Number of "Blank" sample types for the tested compound

Blank.obs

Response of the "Blank" sample types for the tested compound

Blank.cal

Indices of the unique "Blank" Calibration values that corresponds to the "Blank" sample types' Calibration

Blank.Dilution.Factor

Dilution Factor of the "Blank" sample types for the tested compound (number of times the sample was diluted)

Num.cc

Number of "CC" sample types with non-NA Test.Compound.Conc values for the tested compound

cc.obs.conc

Test.Compound.Conc (non-NA) of the "CC" sample types for the tested compound

cc.obs

Response of the "CC" sample types with non-NA Test.Compound.Conc for the tested compound

cc.obs.cal

Indices of the unique "CC" Calibration values that corresponds to the "CC" sample types' Calibration

cc.obs.Dilution.Factor

Dilution Factor of the "CC" sample types (number of times the sample was diluted) with non-NA Test.Compound.Conc for the tested compound

Num.abio.obs

Number of "Inactive" samples types for the tested compound

abio.obs

Response of the "Inactive" sample types for the tested compound

abio.obs.conc

Indices of the Test.Nominal.Conc values that corresponds to the "Inactive" sample types' Test.Nominal.Conc

abio.obs.time

Time of the "Inactive" sample types for the tested compound

abio.obs.cal

Indices of the unique "Inactive" Calibration values that corresponds to the "Inactive" sample types' Calibration

abio.obs.Dilution.Factor

Dilution Factor of the "Inactive" sample types for the tested compound (number of times the sample was diluted)

DECREASE.PROB

Prior probability that a chemical will decrease in the assay. (Defaults to 0.5.)

SATURATE.PROB

Prior probability that a chemicals rate of metabolism will decrease between 1 and 10 uM. (Defaults to 0.25.)

DEGRADE.PROB

Prior probability that a chemical will be unstable (degrade abiotically) in the assay. (Defaults to 0.05.)

References

\insertRef

shibata2002predictioninvitroTKstats

\insertRef

smeltz2023plasmainvitroTKstats


invitroTKstats documentation built on Aug. 23, 2025, 9:08 a.m.