flip.DNA.allele

Flip single base pair DNA alleles to their reverse complement. INDEL flipping is not supported.

Simple and transparent parsing of genotype/dosage data
from an input Variant Call Format (VCF) file, matching of genotype
coordinates to the component Single Nucleotide Polymorphisms (SNPs)
of an existing polygenic score (PGS), and application of SNP weights
to dosages for the calculation of a polygenic score for each individual
in accordance with the additive weighted sum of dosages model. Methods
are designed in reference to best practices described by
Collister, Liu, and Clifton (2022) <doi:10.3389/fgene.2022.818574>.

Paul Boutros

ApplyPolygenicScore

Utilities for the Application of a Polygenic Score to a VCF

Nicole Zeltser

Rachel Dang

Raag Agrawal

flip.DNA.allele function

<dl><dt>alleles</dt>
<dd>A character vector of DNA alleles.</dd>
<dt>return.indels.as.missing</dt>
<dd>A logical value indicating whether to return NA for INDEL alleles. Default is <code>FALSE</code>.</dd></dl>

Arguments

Flip DNA allele — flip.DNA.allele

<dl>

<dt>alleles</dt>
<dd>A character vector of DNA alleles.</dd>


<dt>return.indels.as.missing</dt>
<dd>A logical value indicating whether to return NA for INDEL alleles. Default is <code>FALSE</code>.</dd>

</dl>

flip.DNA.allele: Flip DNA allele

Description

Usage

Value

Arguments

Examples