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ApplyPolygenicScore  

Utilities for the Application of a Polygenic Score to a VCF
View on CRAN: Click here


Download and install ApplyPolygenicScore package within the R console
Install from CRAN:
install.packages("ApplyPolygenicScore")

Install from Github:
library("remotes")
install_github("cran/ApplyPolygenicScore")

Install by package version:
library("remotes")
install_version("ApplyPolygenicScore", "3.0.1")



Attach the package and use:
library("ApplyPolygenicScore")
Maintained by
Paul Boutros
[Scholar Profile | Author Map]
First Published: 2025-03-05
Latest Update: 2025-03-05
Description:
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>.
How to cite:
Paul Boutros (2025). ApplyPolygenicScore: Utilities for the Application of a Polygenic Score to a VCF. R package version 3.0.1, https://cran.r-project.org/web/packages/ApplyPolygenicScore. Accessed 10 Apr. 2025.
Previous versions and publish date:
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Functions, R codes and Examples using the ApplyPolygenicScore R package
Full ApplyPolygenicScore package functions and examples
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