log_BF

Compute log Bayes factor of an association model and model gamma = 0.

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

log_BF function

<dl><dt>y</dt>
<dd>Logical vector of case (<code>TRUE</code>) control (<code>FALSE</code>) status.</dd>
<dt>tau0_shape</dt>
<dd>Beta shape hyper-priors for prior on rate of case labels.</dd>
<dt>...</dt>
<dd>Arguments to pass to <code>bevimed_m</code>.</dd></dl>

Arguments

Calculate log Bayes factor between an association model with a given mode of inheritance and model gamma = 0 — log_BF

<dl>

<dt>y</dt>
<dd>Logical vector of case (<code>TRUE</code>) control (<code>FALSE</code>) status.</dd>


<dt>tau0_shape</dt>
<dd>Beta shape hyper-priors for prior on rate of case labels.</dd>


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

</dl>

log_BF: Calculate log Bayes factor between an association model with a given mode of inheritance and model gamma = 0

Description

Usage

Value

Arguments

See Also