example_results

A data set containing the output of <code>image</code> function call on the
included data set <code>ExampleData</code>.

datasets

Performs mQTL (methylation quantitative-trait locus) mapping in
bisulfite sequencing studies by fitting a binomial mixed model and then
incorporating the allelic-specific methylation pattern. Based on Fan, Yue;
Vilgalys, Tauras P.; Sun, Shiquan; Peng, Qinke; Tung, Jenny; Zhou, Xiang
(2019) <doi:10.1101/615039>.

Michael Kleinsasser

IMAGE

Integrated Methylation QTL Mapping and Allele-Specific Analysis

Xiang Zhou

Shiquan Sun

Yue Fan

example_results function

A <code>data.frame</code> with 1000 rows and 9 variables (columns):<dl class="dl-horizontal">
<dt>Loc</dt><dd>ordinal number of SNP-CpG pair being analyzed</dd>
<dt>numIDV</dt><dd>number of observations of SNP-CpG pair being analyzed</dd>
<dt>beta</dt><dd>the fixed effect parameter estimate for the predictor of interest</dd>
<dt>se_beta</dt><dd>the standard deviation of fixed effect</dd>
<dt>pvalue</dt><dd>P-value for the fixed effect, based on the wald test</dd>
<dt>h2</dt><dd>heritability of the transformed rate</dd>
<dt>sigma</dt><dd>total variance component</dd>
<dt>converged</dt><dd>a logical indicator for convergence</dd>
<dt>time</dt><dd>time to converge</dd>
</dl>

Format

Example results using the example data set — example_results

A <code>data.frame</code> with 1000 rows and 9 variables (columns):<dl class='dl-horizontal'>
<dt>Loc</dt><dd>ordinal number of SNP-CpG pair being analyzed</dd>
<dt>numIDV</dt><dd>number of observations of SNP-CpG pair being analyzed</dd>
<dt>beta</dt><dd>the fixed effect parameter estimate for the predictor of interest</dd>
<dt>se_beta</dt><dd>the standard deviation of fixed effect</dd>
<dt>pvalue</dt><dd>P-value for the fixed effect, based on the wald test</dd>
<dt>h2</dt><dd>heritability of the transformed rate</dd>
<dt>sigma</dt><dd>total variance component</dd>
<dt>converged</dt><dd>a logical indicator for convergence</dd>
<dt>time</dt><dd>time to converge</dd>
</dl>

example_results: Example results using the example data set

Description

Usage

Arguments

Format