h_model_dual_endpoint_rho

<a href="https://lifecycle.r-lib.org/articles/stages.html#stable"><img src="figures/lifecycle-stable.svg?package=crmPack&version=2.0.0" alt="[Stable]"></a>
A simple helper function that takes <code>DualEndpoint</code> model existing components
(<code>priormodel</code>, <code>modelspecs</code>, <code>init</code>, <code>sample</code>), and updates them with regard to
DLT and biomarker correlation <code>rho</code>.

Implements a wide range of dose escalation
designs. The focus is on model-based designs, ranging from classical and
modern continual reassessment methods (CRMs) based on dose-limiting toxicity
endpoints to dual-endpoint designs taking into account a biomarker/efficacy
outcome. Bayesian inference is performed via MCMC sampling in JAGS, and it is easy
to setup a new design with custom JAGS code. However, it is also possible to
implement 3+3 designs for comparison or models with non-Bayesian estimation.
The whole package is written in a modular form in the S4 class system, making it
very flexible for adaptation to new models, escalation or stopping rules.
Further details are presented in
Sabanes Bove et al. (2019) <doi:10.18637/jss.v089.i10>.

Daniel Sabanes Bove

crmPack

Object-Oriented Implementation of Dose Escalation Designs

Wai Yin Yeung

Burak Kuersad Guenhan

Giuseppe Palermo

Thomas Jaki

Jiawen Zhu

Ziwei Liao

Dimitris Kontos

Marlene Schulte-Goebel

Doug Kelkhoff

Oliver Boix

Robert Adams

Clara Beck

John Kirkpatrick

Wojciech Wójciak

Guanya Peng

Prerana Chandratre

F. Hoffmann-La Roche AG 

Merck Healthcare KGaA 

Bayer AG 

RPACT GmbH 

h_model_dual_endpoint_rho function

<dl><dt>use_fixed</dt>
<dd>(<code>flag</code>) indicates whether a fixed value for DLT and
biomarker correlation <code>rho</code> should be used or not. If <code>rho</code> is not supposed
to be a fixed value, a prior distribution from the scaled Beta family will
be used. See the details below, under <code>rho</code> argument.</dd>
<dt>rho</dt>
<dd>(<code>numeric</code>) DLT and biomarker correlation. It must be either a
fixed value (between <code>-1</code> and <code>1</code>), or a named vector with two elements,
named <code>a</code> and <code>b</code> for the Beta prior on the transformation
<code>kappa = (rho + 1) / 2</code>, which is in <code>(0, 1)</code>. For example, <code>a = 1, b = 1</code>
leads to a uniform prior on <code>rho</code>.</dd>
<dt>comp</dt>
<dd>(<code>list</code>) a named list with model components that will be updated.
The names should be: <code>priormodel</code>, <code>modelspecs</code>, <code>init</code>, <code>sample</code>. For
definitions of the components, see <code>GeneralModel</code> class.
The <code>modelspecs</code> and <code>init</code> components on <code>comp</code> list are specified up to
the body of corresponding <code>GeneralModel@modelspecs</code> and <code>GeneralModel@init</code>
functions. These bodies are simply a lists itself.</dd></dl>

Arguments

<a href='https://lifecycle.r-lib.org/articles/stages.html#stable'><img src='figures/lifecycle-stable.svg' alt='[Stable]' /></a>
A simple helper function that takes <code>DualEndpoint</code> model existing components
(<code>priormodel</code>, <code>modelspecs</code>, <code>init</code>, <code>sample</code>), and updates them with regard to
DLT and biomarker correlation <code>rho</code>.

Update DualEndpoint class model components with regard to DLT and biomarker
correlation. — h_model_dual_endpoint_rho

<dl>

<dt>use_fixed</dt>
<dd>(<code>flag</code>) indicates whether a fixed value for DLT and
biomarker correlation <code>rho</code> should be used or not. If <code>rho</code> is not supposed
to be a fixed value, a prior distribution from the scaled Beta family will
be used. See the details below, under <code>rho</code> argument.</dd>


<dt>rho</dt>
<dd>(<code>numeric</code>) DLT and biomarker correlation. It must be either a
fixed value (between <code>-1</code> and <code>1</code>), or a named vector with two elements,
named <code>a</code> and <code>b</code> for the Beta prior on the transformation
<code>kappa = (rho + 1) / 2</code>, which is in <code>(0, 1)</code>. For example, <code>a = 1, b = 1</code>
leads to a uniform prior on <code>rho</code>.</dd>


<dt>comp</dt>
<dd>(<code>list</code>) a named list with model components that will be updated.
The names should be: <code>priormodel</code>, <code>modelspecs</code>, <code>init</code>, <code>sample</code>. For
definitions of the components, see <code>GeneralModel</code> class.
The <code>modelspecs</code> and <code>init</code> components on <code>comp</code> list are specified up to
the body of corresponding <code>GeneralModel@modelspecs</code> and <code>GeneralModel@init</code>
functions. These bodies are simply a lists itself.</dd>

</dl>

Update <code>DualEndpoint</code> class model components with regard to DLT and biomarker
correlation.

h_model_dual_endpoint_rho: Update `DualEndpoint` class model components with regard to DLT and biomarker correlation.

Description

Usage

Value

Arguments