phewas 开源项目推荐（18 个）

mmkim1210 /GeneticsMakie.jl

使用 Makie.jl 进行高性能的遗传学和基因组学相关数据可视化

RayDebashree /metaUSAT

metaUSAT is a data-adaptive statistical approach for testing genetic associations of multiple traits from single/multiple studies using univariate GWAS summary statistics.

li-lab-genetics /STAARpipelinePheWAS

STAAR Pipeline for Analyzing Whole-Genome/Whole-Exome Sequencing Data in PheWAS (PheWAS Version of STAARpipeline)

naim-panjwani /LocusFocus

Application of the Simple Sum method for testing co-localization of GWAS with any other SNP-level data (e.g. eQTL data)

tanaydesai /knockout-discovery

Analyze human genetic knockouts to predict drug efficacy and side effects

AbbVie-ComputationalGenomics /SAIGEgds

Scalable Implementation of generalized mixed models using GDS files in Phenome-Wide Association Studies

pgxcentre /genetest

Python package for efficient genetic association analyses

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.

Sung-Bong-Kang /hGMNet

hGMNet : host Genetics and Microbe interaction Networks

michael-denyer /pyLocusZoom

pyLocusZoom -- publication-ready GWAS visualization in Python: LocusZoom-style regional association plots with LD coloring, gene tracks and recombination overlays, plus Manhattan, QQ, Miami, eQTL, fine-mapping, PheWAS and forest plots. Dog and cat genomes built in.

ammegandchips /EPoCH

Code necessary to conduct all data prep and analysis in the EPoCH study.

chanwkimlab /MHC_Kor_Assoc

Phenome-wide association study of the major histocompatibility complex region in the Korean population identifies novel association signals

tom-naccarato /Vis-PheWAS

A visualisation platform for analysing disease-allele associations using HLA-PheWAS data

ahryho /psychoGxE

Joint impact of environmental and genetic determinants on the aetiology of stress-related psychiatric disorders.

GRONINGEN-MICROBIOME-CENTRE /SNV-MWAS

Analysis code for SNV-MWAS project

mmkim1210 /acne-genetics

💆🏻J’ai déjà toi

yuxinyuanqt /STAARpipelinePheWAS

STAAR Pipeline for Analyzing Whole-Genome/Whole-Exome Sequencing Data in PheWAS (PheWAS Version of STAARpipeline)

MatthewOGoodman /MS_severity_phewas

Code for the MS severity (MSSS) PheWAS, replication and meta-analysis (Neurol Neuroimmunol Neuroinflamm 2020)