polygenic-risk-scores

There are 33 repositories under polygenic-risk-scores topic.

  • PGScatalog/pgsc_calc

    The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation

    Language:Nextflow1211119621

  • rivas-lab/covid19

    As a part of COVID-19 Host Genetics Initiative, we perform the following set of analyses to better understand the genetic basis of COVID-19 susceptibility and severity.

    Language:Jupyter Notebook43607

  • comorment/containers

    CoMorMent-Containers

    Language:R2671709

  • shz9/viprs

    Variational Inference of Polygenic Risk Scores

    Language:Python194102

  • maialab/quincunx

    quincunx: an R package to query, download and wrangle PGS Catalog data

    Language:R14221
  • PGSToolKit

    swvanderlaan/PGSToolKit

    A toolkit to calculate polygenic scores using PLINK2, PRS-CS, RapidoPGS, or PRSice2.

    Language:Shell14504

  • intervene-EU-H2020/synthetic_data

    Software program for generating synthetic datasets for genotypes and phenotypes

    Language:Jupyter Notebook13363

  • sethsh7/hla-prs-toolkit

    Toolkit to aid generation of advanced Polygenic Risk Scores (PRS) including SNP-allele tagging and interaction models, especially in HLA. Developed and maintained by Seth Sharp (S.sharp@exeter.ac.uk).

    Language:Python103106

  • Chris1221/pRs

    Toolkit for the efficient construction and analysis of polygenic risk scores in R.

    Language:R9448

  • omerwe/MKLMM

    Multi Kernel Linear Mixed Models for Complex Phenotype Prediction

    Language:Python8215

  • PGScatalog/pygscatalog

    Python applications and libraries for working with PGS data and the PGS Catalog

    Language:Python65211

  • ramiromagno/quincunx

    quincunx: an R package to query, download and wrangle PGS Catalog data

    Language:R6110

  • shz9/tokyo-symposium-2024

    Tokyo Symposium on Genomic Medicine (2024)

    Language:Jupyter Notebook5101

  • WCSCourses/prs_2023

    PRS Africa 2023

    Language:R5307

  • PGScatalog/pgscatalog_utils

    (superseded by pygscatalog) Utilities for working with PGS Catalog API and scoring files

    Language:Python43353

  • cth/grspwr

    power calculator for Genetic Risk Scores (GRS)

    Language:R2200

  • mzfu/ADPRS_PheWAS

    Those are the code files for producing the PheWAS analyses in the manuscript "Phenome-Wide Association Study of Polygenic Risk Score for Alzheimer’s Disease in Electronic Health Records". Part of our analyses included sensitive genomic data. Codes to produce AD PRS were not included here.

    Language:R2100
  • degas-risk

    rivas-lab/degas-risk

    Polygenic risk modeling with latent trait-related genetic components

    Language:Jupyter Notebook230

  • sarasaezALS/ALS_Pathways

    This repository contains the programming codes used in Genetic analysis of amyotrophic lateral sclerosis identifies contributing pathways and cell types https://advances.sciencemag.org/content/7/3/eabd9036

    2200
  • exPRSso

    alessiohappy/exPRSso

    exPRSso is an easy-to-use web application to reproduce already existing, published Polygenic Risk Scores (PRS) in your data.

    Language:R1

  • EuracBiomedicalResearch/prs_pipeline

    Pipeline for PRS computation integrating diverse PRS algorithms into a unique Snakemake workflow.

    Language:R130

  • quansun98/GAUDI

    GAUDI: a penalized regression based PRS method designed specifically for admixed individuals

    Language:R1130

  • Sagarnandeshwar/Variational_Inference_Of_Bayesian_Linear_Regression

    Machine Learning in Genomics and Healthcare (COMP 565) Project

    Language:Jupyter Notebook110

  • Sagarnandeshwar/Variational_Inference_Of_PRS_Using_Empirical_Prior

    Machine Learning in Genomics and Healthcare (COMP 565) Project

    Language:Jupyter Notebook1100

  • fsakhtari/PRS

    Polygenic Risk Scores (PRS) pipeline.

    Language:R0100

  • mode1990/Bayesian-PRS

    Bayesian PRS methods model uncertainty in effect size estimates and shrink small effect sizes to mitigate spurious associations and biases from sample overlap. By using full posterior distributions rather than point estimates, they effectively account for estimation errors and reduce the impact of artificially inflated associations.

    Language:Jupyter Notebook0100

  • mode1990/sc-informed-PRS-analysis

    single cell informed polygenic risk scoring in Parkinson's disease

    Language:R0100

  • pgees23/PRS

    INVESTIGATING THE ASSOCIATION BETWEEN POLYGENIC RISK SCORE OF ADIPOSE TISSUE FUNCTION AND CARDIOVASCULAR DISEASE

    Language:Stata0100

  • yingxi-kaylee/ssCTPR

    Cross-Trait Penalized Regression using Summary Statistics

    Language:R0103

  • amrsalm/deep-learning-prs

    Predicting kidney stone risk using CNNs on genetic data, analyzing 400+ SNPs for precise risk stratification with Polygenic Risk Scores (PRS)

    Language:Python

  • garethmarkel/PRScs.jl

    Julia implementation of Ge et al's PRScs

    Language:Julia10

  • moka-guys/fhprs

    FH Polygenic risk score

    Language:Python51

  • swvanderlaan/2020_n_timmerman_n_fhx_prs_cad

    Family history and polygenic risk of cardiovascular disease: independent factors associated with secondary cardiovascular manifestations in patients undergoing carotid endarterectomy

    Language:Scheme30