build_mydata_clint

Builds a list of arguments required for JAGS from subset of level-2 data frame. 
The list is used as an argument to JAGS during level-4 processing.

A set of tools for processing and analyzing in vitro toxicokinetic
measurements in a standardized and reproducible pipeline. The package
was developed to perform frequentist and Bayesian estimation on a
variety of in vitro toxicokinetic measurements including -- but not
limited to -- chemical fraction unbound in the presence of plasma
(f_up), intrinsic hepatic clearance (Clint,
uL/min/million hepatocytes), and membrane permeability for
oral absorption (Caco2). The methods provided
by the package were described in Wambaugh et al. (2019) <doi:10.1093/toxsci/kfz205>.

Caroline Ring

invitroTKstats

In Vitro Toxicokinetic Data Processing and Analysis Pipeline

John Wambaugh

Sarah E. Davidson-Fritz

Lindsay Knupp

Barbara A. Wetmore

Zhao Zhihui

Chantel Nicolas

Anna Kreutz

U.S. Federal Government 

build_mydata_clint function

<dl><dt>this.cvt</dt>
<dd>(Data Frame) Subset of data containing all "Cvst" sample observations of one test compound.</dd>
<dt>this.data</dt>
<dd>(Data Frame) Subset of data containing all observations of one test compound.</dd>
<dt>decrease.prob</dt>
<dd>(Numeric) Prior probability that a chemical will decrease in
the assay.</dd>
<dt>saturate.prob</dt>
<dd>(Numeric) Prior probability that a chemicals rate of metabolism
will decrease between 1 and 10 uM.</dd>
<dt>degrade.prob</dt>
<dd>(Numeric) Prior probability that a chemical will be unstable
(that is, degrade abiotically) in the assay.</dd></dl>

Arguments

Build Data Object for Intrinsic Hepatic Clearance (Clint) Bayesian Model — build_mydata_clint

<dl>

<dt>this.cvt</dt>
<dd>(Data Frame) Subset of data containing all "Cvst" sample observations of one test compound.</dd>


<dt>this.data</dt>
<dd>(Data Frame) Subset of data containing all observations of one test compound.</dd>


<dt>decrease.prob</dt>
<dd>(Numeric) Prior probability that a chemical will decrease in
the assay.</dd>


<dt>saturate.prob</dt>
<dd>(Numeric) Prior probability that a chemicals rate of metabolism
will decrease between 1 and 10 uM.</dd>


<dt>degrade.prob</dt>
<dd>(Numeric) Prior probability that a chemical will be unstable
(that is, degrade abiotically) in the assay.</dd>

</dl>

Build Data Object for Intrinsic Hepatic Clearance (Clint) Bayesian Model

build_mydata_clint: Build Data Object for Intrinsic Hepatic Clearance (Clint) Bayesian Model

Description

Usage

Value

Arguments