GitHub topics: polygenic-risk-scores
ramiromagno/quincunx
quincunx: an R package to query, download and wrangle PGS Catalog data
Language: R - Size: 6.24 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 7 - Forks: 0
shz9/viprs
Variational Inference of Polygenic Risk Scores
Language: Python - Size: 9.48 MB - Last synced at: 6 days ago - Pushed at: about 1 month ago - Stars: 24 - Forks: 2
WCSCourses/PRS_2025 Fork of WCSCourses/Polygenic_Risk_Scores
This short course is designed to equip scientists based in Africa with the skills and knowledge to perform polygenic risk scores (PRS) analysis.
Language: Shell - Size: 7.04 MB - Last synced at: 12 days ago - Pushed at: 12 days ago - Stars: 0 - Forks: 1
MuhammadMuneeb007/EFGPP
Exploratory Framework for Genotype-Phenotype Prediction
Language: Python - Size: 14.9 MB - Last synced at: 19 days ago - Pushed at: 19 days ago - Stars: 4 - Forks: 0
PGScatalog/pgsc_calc
The Polygenic Score Catalog Calculator is a nextflow pipeline for polygenic score calculation
Language: Nextflow - Size: 10.5 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 127 - Forks: 25
comorment/containers
CoMorMent-Containers
Language: R - Size: 25.2 MB - Last synced at: about 2 months ago - Pushed at: 2 months ago - Stars: 28 - Forks: 11
omerwe/MKLMM
Multi Kernel Linear Mixed Models for Complex Phenotype Prediction
Language: Python - Size: 16 MB - Last synced at: 2 months ago - Pushed at: almost 3 years ago - Stars: 9 - Forks: 5
PGScatalog/pygscatalog
Python applications and libraries for working with PGS data and the PGS Catalog
Language: Python - Size: 3.79 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 7 - Forks: 3
EuracBiomedicalResearch/prs_pipeline
Pipeline for PRS computation integrating diverse PRS algorithms into a unique Snakemake workflow.
Language: R - Size: 224 KB - Last synced at: 2 months ago - Pushed at: 2 months ago - Stars: 1 - Forks: 0
chiara-cattani/Genetic-Fertility-Longevity-Trade-Off
Exploring the genetic and behavioral factors behind the fertility-longevity trade-off, this project uses survival analysis and polygenic risk scores to uncover the complex interplay of reproductive behavior, socio-demographic influences, and genetic predispositions in shaping human lifespan.
Language: R - Size: 11.9 MB - Last synced at: 3 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
garethmarkel/PRScs.jl
Julia implementation of Ge et al's PRScs
Language: Julia - Size: 35.2 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
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 - Size: 0 Bytes - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 0
swvanderlaan/PGSToolKit
A toolkit to calculate polygenic scores using PLINK2, PRS-CS, RapidoPGS, or PRSice2.
Language: Shell - Size: 1.27 MB - Last synced at: 9 days ago - Pushed at: 10 months ago - Stars: 14 - Forks: 4
alessiohappy/exPRSso
Use exPRSso to reproduce a published PRS in your data. Upload .ped and .map files, get a published PRS summary and calculate the score in an unweighted and weighted manner.
Language: R - Size: 520 KB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 0
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 Notebook - Size: 6.18 MB - Last synced at: 3 months ago - Pushed at: about 5 years ago - Stars: 43 - Forks: 7
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 Notebook - Size: 158 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0
mode1990/sc-informed-PRS-analysis
single cell informed polygenic risk scoring in Parkinson's disease
Language: R - Size: 8.79 KB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
PGScatalog/pgscatalog_utils
(superseded by pygscatalog) Utilities for working with PGS Catalog API and scoring files
Language: Python - Size: 3.15 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 5 - Forks: 3
quansun98/GAUDI
GAUDI: a penalized regression based PRS method designed specifically for admixed individuals
Language: R - Size: 215 KB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 0 - Forks: 0
moka-guys/fhprs
FH Polygenic risk score
Language: Python - Size: 51.8 KB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0
shz9/tokyo-symposium-2024
Tokyo Symposium on Genomic Medicine (2024)
Language: Jupyter Notebook - Size: 1.5 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 0
intervene-EU-H2020/synthetic_data
Software program for generating synthetic datasets for genotypes and phenotypes
Language: Jupyter Notebook - Size: 82.2 MB - Last synced at: about 1 year ago - Pushed at: almost 2 years ago - Stars: 9 - Forks: 2
cth/grspwr
power calculator for Genetic Risk Scores (GRS)
Language: R - Size: 21.5 KB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 2 - Forks: 0
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
Size: 91.8 KB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 2 - Forks: 1
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: R - Size: 30.3 KB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 2 - Forks: 0
rivas-lab/degas-risk
Polygenic risk modeling with latent trait-related genetic components
Language: Jupyter Notebook - Size: 410 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0
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 ([email protected]).
Language: Python - Size: 935 KB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 8 - Forks: 4
Sagarnandeshwar/Variational_Inference_Of_PRS_Using_Empirical_Prior
Machine Learning in Genomics and Healthcare (COMP 565) Project
Language: Jupyter Notebook - Size: 1.44 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 1 - Forks: 0
Sagarnandeshwar/Variational_Inference_Of_Bayesian_Linear_Regression
Machine Learning in Genomics and Healthcare (COMP 565) Project
Language: Jupyter Notebook - Size: 1.43 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 1 - Forks: 0
WCSCourses/prs_2023
PRS Africa 2023
Language: R - Size: 3.64 MB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 5
Chris1221/pRs 📦
Toolkit for the efficient construction and analysis of polygenic risk scores in R.
Language: R - Size: 10.9 MB - Last synced at: over 2 years ago - Pushed at: over 6 years ago - Stars: 7 - Forks: 7
maialab/quincunx
quincunx: an R package to query, download and wrangle PGS Catalog data
Language: R - Size: 2.46 MB - Last synced at: almost 2 years ago - Pushed at: almost 3 years ago - Stars: 11 - Forks: 1
fsakhtari/PRS
Polygenic Risk Scores (PRS) pipeline.
Language: R - Size: 32.2 MB - Last synced at: 5 months ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0
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: Scheme - Size: 236 KB - Last synced at: 9 days ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0