Bphe_target

Phenotype data file of the target dataset when the outcome is binary.
This contains phenotype information of the individuals in the target dataset.

datasets

A novel PRS model is introduced to enhance the prediction accuracy by utilising GxE effects. This package performs Genome Wide Association Studies (GWAS) and Genome Wide Environment Interaction Studies (GWEIS) using a discovery dataset. The package has the ability to obtain polygenic risk scores (PRSs) for a target sample. Finally it predicts the risk values of each individual in the target sample. Users have the choice of using existing models (Li et al., 2015) <doi:10.1093/annonc/mdu565>, (Pandis et al., 2013) <doi:10.1093/ejo/cjt054>, (Peyrot et al., 2018) <doi:10.1016/j.biopsych.2017.09.009> and (Song et al., 2022) <doi:10.1038/s41467-022-32407-9>, as well as newly proposed models for genomic risk prediction (refer to the URL for more details).

Dovini Jayasinghe

GxEprs

Genotype-by-Environment Interaction in Polygenic Score Models

Hong Lee

Moksedul Momin

Bphe_target function

A dataframe with 200 rows and 3 columns<dl>
<dt>Column 1</dt>
<dd>Family ID</dd><dt>Column 2</dt>
<dd>Individual ID</dd><dt>Column 3</dt>
<dd>Phenotype (0=controls, 1=cases)</dd>
</dl>

Format

Phenotype data file of the target dataset when the outcome is binary.
This contains phenotype information of the individuals in the target dataset. — Bphe_target

A dataframe with 200 rows and 3 columns<dl>
<dt>Column 1</dt>
<dd>Family ID</dd>

<dt>Column 2</dt>
<dd>Individual ID</dd>

<dt>Column 3</dt>
<dd>Phenotype (0=controls, 1=cases)</dd>


</dl>

Bphe_target: Phenotype data file of the target dataset when the outcome is binary. This contains phenotype information of the individuals in the target dataset.

Description

Usage

Arguments

Format