extract_prob_pathogenic

Extract the marginal probability of pathogenicity for individual variants from <code>BeviMed</code> object, optionally broken down by mode of inheritance/model.

A fast integrative genetic association test for rare diseases based on a model for disease status given allele counts at rare variant sites. Probability of association, mode of inheritance and probability of pathogenicity for individual variants are all inferred in a Bayesian framework - 'A Fast Association Test for Identifying Pathogenic Variants Involved in Rare Diseases', Greene et al 2017 <doi:10.1016/j.ajhg.2017.05.015>.

Daniel Greene

BeviMed

Bayesian Evaluation of Variant Involvement in Mendelian Disease

extract_prob_pathogenic function

<dl><dt>x</dt>
<dd>Object of class <code>BeviMed</code>.</dd>
<dt>by_model</dt>
<dd>Logical value determining whether to return probabilities broken down by mode of inheritance.</dd></dl>

Arguments

Extract variant marginal probabilities of pathogenicity — extract_prob_pathogenic

<dl>

<dt>x</dt>
<dd>Object of class <code>BeviMed</code>.</dd>


<dt>by_model</dt>
<dd>Logical value determining whether to return probabilities broken down by mode of inheritance.</dd>

</dl>

extract_prob_pathogenic: Extract variant marginal probabilities of pathogenicity

Description

Usage

Value

Arguments

See Also