polygenic-risk-scores

There are 4 repositories under polygenic-risk-scores topic.

• PGScatalog / pgsc_calc

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

  genetic-risk-scorenextflowpgspgs-catalogpolygenic-risk-scorepolygenic-risk-scorespolygenic-scorepolygenic-scoresprsworkflow
  Language:Nextflow 102
• biomarkers

  rivas-lab / biomarkers

  Genetics of blood and urine biomarkers in the UK Biobank

  alanine-aminotransferasealt-astcreatinineegfrgwasgeneticsldlcholesteroltriglyceridesggtalbuminglucosehba1clpatestosteroneshbgigf1bilirubinbiomarkerspolygenic-risk-scores
  Language:Jupyter Notebook 47

• 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.

  coronaviruscovid-19geneticsabo-blooduk-biobankhlapolygenic-risk-scoresblood-groupsars-cov-2
  Language:Jupyter Notebook 42

• comorment / containers

  CoMorMent-Containers

  containersgwaspolygenic-risk-scoressingularity-containers
  Language:R 19

• shz9 / viprs

  Variational Inference of Polygenic Risk Scores

  gwasmedicinepolygenic-risk-scoresprsvariational-inferencepgs
  Language:Python 16

• maialab / quincunx

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

  ebigwaspolygenic-risk-scorespolygenic-scoresrr-package
  Language:R 13
• PGSToolKit

  swvanderlaan / PGSToolKit

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

  genetic-risk-scoregrsldpredpolygenicpolygenic-risk-scorespolygenic-scoresprsprsice
  Language:Shell 13

• intervene-EU-H2020 / synthetic_data

  Software program for generating synthetic datasets for genotypes and phenotypes

  bioinformaticsdata-generatorgenerative-modelgeneticsgenomicsjuliaphenotypesphenotypingpolygenic-risk-scorespolygenic-scoressimulationsynthetic-data
  Language:Jupyter Notebook 11

• Chris1221 / pRs

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

  polygenic-risk-scoresgeneticsplink
  Language:R 9

• 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).

  bioinformaticsgenetic-risk-scoregeneticsgenomicshlaimmunogeneticspolygenic-risk-scorespython
  Language:Python 9

• omerwe / MKLMM

  Multi Kernel Linear Mixed Models for Complex Phenotype Prediction

  statistical-geneticsgwaspolygenic-risk-scorespolygenic-scoresmachine-learninggaussian-processesgaussian-process-regressionkernel-methods
  Language:Python 8

• PGScatalog / pgscatalog_utils

  Utilities for working with PGS Catalog API and scoring files

  genetic-risk-scorepgs-catalogpolygenic-risk-scorespolygenic-scores
  Language:Python 5

• ramiromagno / quincunx

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

  rr-packagepolygenic-risk-scorespolygenic-scoresgwas
  Language:R 4

• shz9 / tokyo-symposium-2024

  Tokyo Symposium on Genomic Medicine (2024)

  genotypegwaspolygenicpolygenic-risk-scoresprstutorialworkshop
  Language:Jupyter Notebook 3

• WCSCourses / prs_2023

  PRS Africa 2023

  genomicspolygenic-risk-scoresr
  Language:R 3

• cth / grspwr

  power calculator for Genetic Risk Scores (GRS)

  genetic-risk-scoregeneticsimputation-accuracypolygenic-risk-scoresstatistics
  Language:R 2

• 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.

  alzheimers-diseasephewasrprogrammingpolygenic-risk-scores
  Language:R 2
• degas-risk

  rivas-lab / degas-risk

  Polygenic risk modeling with latent trait-related genetic components

  polygenic-risk-scoresprsukbiobankprincipal-component-analysisrisk-scoresgeneticsgwasgwas-summary-statistics
  Language:Jupyter Notebook 2

• 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

  polygenic-risk-scoresalscell-types
  2

• Sagarnandeshwar / Variational_Inference_Of_Bayesian_Linear_Regression

  Machine Learning in Genomics and Healthcare (COMP 565) Project

  bayesian-inferencehealthcaremachine-learningpolygenic-risk-scoresspike-slab-priorsvariational-inference
  Language:Jupyter Notebook 1

• Sagarnandeshwar / Variational_Inference_Of_PRS_Using_Empirical_Prior

  Machine Learning in Genomics and Healthcare (COMP 565) Project

  machine-learningvariational-inferencehealthcarepolygenic-risk-scores
  Language:Jupyter Notebook 1

• fsakhtari / PRS

  Polygenic Risk Scores (PRS) pipeline.

  genomicspolygenic-risk-scorespolygenic-scores
  Language:R 0

• pgees23 / PRS

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

  adipose-tissuecardiovascular-diseasespolygenic-risk-scores
  Language:Stata 0

• quansun98 / GAUDI

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

  penalized-regressionpolygenic-risk-scoresstatistical-genetics
  Language:R 0

• garethmarkel / PRScs.jl

  Julia implementation of Ge et al's PRScs

  bayesian-methodsgwasgwas-summary-statisticsjuliapolygenic-risk-scores
  Language:Julia

• moka-guys / fhprs

  FH Polygenic risk score

  polygenic-risk-scores
  Language:Python

• 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

  cardiovascular-diseasesfhxpolygenic-risk-scorescvdcarotid-endarterectomy
  Language:Scheme

• yingxi-kaylee / ssCTPR

  Cross-Trait Penalized Regression using Summary Statistics

  polygenic-risk-scoreselastic-net
  Language:R