varfreq_expected_mbias

This function calculates the multiplicative bias of the observed variant proportion
relative to the actual variant proportion. This function assumes that variant 1 is the variant of concern.
This function is specific to the two-variant system.

Implements novel tools for estimating sample sizes needed for phylogenetic studies, including
studies focused on estimating the probability of true pathogen transmission between two cases given phylogenetic linkage and studies focused on tracking pathogen variants at a population level. Methods described in Wohl, Giles, and Lessler (2021) and in Wohl, Lee, DiPrete, and Lessler (2023).

Justin Lessler

phylosamp

Sample Size Calculations for Molecular and Phylogenetic Studies

Shirlee Wohl

Elizabeth C Lee

Lucy D'Agostino McGowan

John R Giles

varfreq_expected_mbias function

<dl><dt>p_v1</dt>
<dd>actual variant prevalence (proportion)</dd>
<dt>c_ratio</dt>
<dd>coefficient of detection ratio, calculated as the ratio of the coefficients of variant 1 to variant 2</dd></dl>

Arguments

Shirlee Wohl, Elizabeth C. Lee, Bethany L. DiPrete, and Justin Lessler

Author

Calculate multiplicative bias (observed / actual) in variant prevalence — varfreq_expected_mbias

<dl>

<dt>p_v1</dt>
<dd>actual variant prevalence (proportion)</dd>


<dt>c_ratio</dt>
<dd>coefficient of detection ratio, calculated as the ratio of the coefficients of variant 1 to variant 2</dd>

</dl>

varfreq_expected_mbias: Calculate multiplicative bias (observed / actual) in variant prevalence

Description

Usage

Value

Arguments

Author

See Also

Examples