baseline_covariates

Set parameters to generate correlated multivariate normal data for internal and external patients.

Bayesian dynamic borrowing is an approach to incorporating external
data to supplement a randomized, controlled trial analysis in which
external data are incorporated in a dynamic way (e.g., based on similarity
of outcomes); see Viele 2013 <doi:10.1002/pst.1589> for an overview.
This package implements the hierarchical commensurate prior approach to dynamic borrowing
as described in Hobbes 2011 <doi:10.1111/j.1541-0420.2011.01564.x>.
There are three main functionalities. First, 'psborrow2' provides a user-friendly
interface for applying dynamic borrowing on the study results handles the Markov Chain
Monte Carlo sampling on behalf of the user. Second, 'psborrow2' provides a
simulation framework to compare different borrowing parameters (e.g. full borrowing, no
borrowing, dynamic borrowing) and other trial and borrowing characteristics
(e.g. sample size, covariates) in a unified way. Third, 'psborrow2' provides
a set of functions to generate data for simulation studies, and also allows
the user to specify their own data generation process. This package is designed to
use the sampling functions from 'cmdstanr' which can be installed from
<https://stan-dev.r-universe.dev>.

Matt Secrest

psborrow2

Bayesian Dynamic Borrowing Analysis and Simulation

Isaac Gravestock

Craig Gower-Page

Manoj Khanal

Mingyang Shan

Kexin Jin

Zhi Yang

Genentech, Inc. 

baseline_covariates function

<dl><dt>names</dt>
<dd>character vector of variable names.</dd>
<dt>means_int</dt>
<dd>numeric vector of means for internal patients. Must have same length as <code>names</code></dd>
<dt>means_ext</dt>
<dd>numeric vector of means for external patients. Must have same length as <code>names</code></dd>
<dt>covariance_int</dt>
<dd>variance-covariance matrix for generating multivariate normal for internal patients.
Must be square matrix with same number of rows and <code>length(names)</code></dd>
<dt>covariance_ext</dt>
<dd>variance-covariance matrix for generating multivariate normal data for external patients.
Must be square matrix with same number of rows and <code>length(names)</code></dd></dl>

Arguments

Specify Correlated Baseline Covariates — baseline_covariates

<dl>

<dt>names</dt>
<dd>character vector of variable names.</dd>


<dt>means_int</dt>
<dd>numeric vector of means for internal patients. Must have same length as <code>names</code></dd>


<dt>means_ext</dt>
<dd>numeric vector of means for external patients. Must have same length as <code>names</code></dd>


<dt>covariance_int</dt>
<dd>variance-covariance matrix for generating multivariate normal for internal patients.
Must be square matrix with same number of rows and <code>length(names)</code></dd>


<dt>covariance_ext</dt>
<dd>variance-covariance matrix for generating multivariate normal data for external patients.
Must be square matrix with same number of rows and <code>length(names)</code></dd>

</dl>

baseline_covariates: Specify Correlated Baseline Covariates

Description

Usage

Value

Arguments

Examples