Scalable PRSUP framework to run the transfer PRS from large population to under-representative population

Prepare dataset

You need to download from this ggdrive link:

• data.zip: https://drive.google.com/file/d/1EVVIpVa_9sr_S8Raq_54kJ9Y67dxLdde/view?usp=share_link

Unzip the data.zip file and put into the tutorials folder

Install the requirements

I recommend to use conda to setup the environment

git clone https://github.com/BiomedicalMachineLearning/VGP.git
cd VGP
conda env create -f environment.yml

Besides, it's required to install R packages for LDpred2 and PolyFun/PolyPred. In R console:

install.packages(c("bigsnpr","susieR"))

Tutorials

• Multiple populations for transfer PRS: Link