prob_pathogenic

Calls <code>bevimed</code> and <code>extract_prob_pathogenic</code> to obtain marginal probabilities of pathogenicity.

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

prob_pathogenic function

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

Arguments

Calculate variant marginal probabilities of pathogencity — prob_pathogenic

<dl>

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


<dt>...</dt>
<dd>Arguments to pass to <code>bevimed</code>.</dd>

</dl>

prob_pathogenic: Calculate variant marginal probabilities of pathogencity

Description

Usage

Value

Arguments

See Also