Alternatives and similar repositories for GWAS

Users that are interested in GWAS are comparing it to the libraries listed below

• eQTL-Catalogue / qtlmap
  Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue
  ☆48Updated last month
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆65Updated 2 years ago
• StatFunGen / xqtl-protocol
  Molecular QTL analysis protocol developed by ADSP Functional Genomics Consortium
  ☆44Updated this week
• atgu / ukbb_pan_ancestry
  Analyses conducting GWAS across the UKBB diverse superpopulations
  ☆50Updated 7 months ago
• andreyshabalin / MatrixEQTL
  Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
  ☆79Updated last year
• neurogenetics / GWAS-pipeline
  This is a general (somewhat comprehensive) description of the LNG GWAS pipeline which can be used to guide researchers on how-to run a GW…
  ☆41Updated 2 years ago
• gusevlab / fusion_twas
  methods for functional summary-based imputation
  ☆83Updated 2 years ago
• sirselim / illumina450k_filtering
  A collection of resources to filter 'bad' probes from the Illumina 450k and EPIC methylation arrays
  ☆30Updated last year
• immunogenomics / HLA-TAPAS
  HLA-TAPAS pipeline for HLA association and fine-mapping studies
  ☆53Updated last year
• hamidghaedi / Enrichment-Analysis
  From RNA-seq raw reads to enriched pathways by DEGs
  ☆32Updated last year
• gkichaev / PAINTOR_V3.0
  Fast, integrative fine mapping with functional data
  ☆58Updated 5 years ago
• stormlovetao / eQTLQC
  ☆26Updated 4 years ago
• variani / finemapr
  Fine-mapping pipeline in R: FINEMAP, CAVIAR, PAINTOR, GCTA-COJO, ABF
  ☆31Updated last year
• RitchieLab / GWAS-QC
  Quality control steps for GWAS
  ☆21Updated last year
• brielin / Popcorn
  Software for estimating correlation of trait effect sizes across populations
  ☆46Updated last month
• leelabsg / SKAT
  Sequence kernel association test (SKAT)
  ☆49Updated 3 months ago
• joepickrell / fgwas
  Functional genomics and genome-wide association studies
  ☆67Updated 6 years ago
• RitchieLab / eQTpLot
  Visualization of Colocalization Between eQTL and GWAS Data
  ☆84Updated 3 years ago
• melindacmills / IntroStatisticalGenetics
  GitHub site to accompany Textbook Introduction to Statistical Genetic Data Analysis
  ☆28Updated 5 years ago
• fhormoz / caviar
  ☆58Updated 3 years ago
• saralpulit / gwas-scripts
  A repository containing various scripts useful for performing quality control on data from genome-wide association studies and visualizin…
  ☆20Updated 7 years ago
• gabraham / plink2R
  Read PLINK BED/BIM/FAM files into R
  ☆40Updated 3 years ago
• xihaoli / STAARpipeline-Tutorial
  The tutorial for performing single-/multi-trait association analysis of whole-genome/whole-exome sequencing (WGS/WES) studies using FAVOR…
  ☆29Updated 5 months ago
• xihaoli / STAARpipeline
  An R package for performing association analysis of whole-genome/whole-exome sequencing (WGS/WES) studies using STAARpipeline
  ☆64Updated last month
• reimandlab / ActivePathways
  Integrative pathway enrichment analysis of multivariate omics data
  ☆109Updated 9 months ago
• genepi-freiburg / gwas
  Scripts for GWAS association and metaanalysis
  ☆43Updated 4 years ago
• jianhong / trackViewer
  A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
  ☆70Updated 3 weeks ago
• mikegloudemans / gwas-download
  Easily download publicly available GWAS summary statistics.
  ☆76Updated last year
• broadinstitute / gtex-v8
  Notebooks and scripts for reproducing analyses and figures from the V8 GTEx Consortium paper
  ☆41Updated 5 months ago
• genepi / nf-gwas
  A nextflow pipeline to perform state-of-the-art genome-wide association studies.
  ☆67Updated last month