visualize_case_control_matrix

Special to case-control visualization: upper right for cases, lower left
for controls.

Provides functions to specify, fit and visualize
nested partially-latent class models (
Wu, Deloria-Knoll, Hammitt, and Zeger (2016) <doi:10.1111/rssc.12101>;
Wu, Deloria-Knoll, and Zeger (2017) <doi:10.1093/biostatistics/kxw037>;
Wu and Chen (2021) <doi:10.1002/sim.8804>) for
inference of population disease etiology and individual diagnosis. In the motivating
Pneumonia Etiology Research for Child Health (PERCH) study, because both quantities
of interest sum to one hundred percent, the PERCH scientists frequently refer to
them as population etiology pie and individual etiology pie, hence the name of the package.

Zhenke Wu

baker

"Nested Partially Latent Class Models"

Scott Zeger

John Muschelli

Irena Chen

visualize_case_control_matrix function

<dl><dt>mat</dt>
<dd>matrix of values: upper for cases, lower for controls;</dd>
<dt>dim_names</dt>
<dd>names of the columns, from left to right. It is also the
names of the rows, from bottom to top. Default is 1 through <code>ncol(mat)</code>;</dd>
<dt>cell_metrics</dt>
<dd>the meaning of number in every cell;</dd>
<dt>folding_line</dt>
<dd>Default is <code>TRUE</code> for adding dashed major diagonal
line.</dd>
<dt>axes</dt>
<dd>plot axes; default is <code>FALSE</code>;</dd>
<dt>xlab</dt>
<dd>label for x-axis</dd>
<dt>ylab</dt>
<dd>label for y-axis</dd>
<dt>asp</dt>
<dd>aspect ratio; default is <code>1</code> to ensure square shape</dd>
<dt>title</dt>
<dd>text for the figure</dd></dl>

Arguments

Visualize matrix for a quantity measured on cases and controls (a single number) — visualize_case_control_matrix

<dl>

<dt>mat</dt>
<dd>matrix of values: upper for cases, lower for controls;</dd>


<dt>dim_names</dt>
<dd>names of the columns, from left to right. It is also the
names of the rows, from bottom to top. Default is 1 through <code>ncol(mat)</code>;</dd>


<dt>cell_metrics</dt>
<dd>the meaning of number in every cell;</dd>


<dt>folding_line</dt>
<dd>Default is <code>TRUE</code> for adding dashed major diagonal
line.</dd>


<dt>axes</dt>
<dd>plot axes; default is <code>FALSE</code>;</dd>


<dt>xlab</dt>
<dd>label for x-axis</dd>


<dt>ylab</dt>
<dd>label for y-axis</dd>


<dt>asp</dt>
<dd>aspect ratio; default is <code>1</code> to ensure square shape</dd>


<dt>title</dt>
<dd>text for the figure</dd>

</dl>

visualize_case_control_matrix: Visualize matrix for a quantity measured on cases and controls (a single number)

Description

Usage

Value

Arguments