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
  ☆49Updated 3 weeks ago
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆67Updated 2 years ago
• xihaoli / STAARpipeline
  An R package for performing association analysis of whole-genome/whole-exome sequencing (WGS/WES) studies using STAARpipeline
  ☆65Updated 3 months ago
• gusevlab / fusion_twas
  methods for functional summary-based imputation
  ☆85Updated 3 years ago
• 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…
  ☆42Updated 3 years ago
• immunogenomics / HLA-TAPAS
  HLA-TAPAS pipeline for HLA association and fine-mapping studies
  ☆54Updated last year
• hamidghaedi / Enrichment-Analysis
  From RNA-seq raw reads to enriched pathways by DEGs
  ☆32Updated last year
• xuzhougeng / R-ChIP-data-analysis
  ☆50Updated 6 years ago
• MonashBioinformaticsPlatform / RSeQC
  fork of RSeQC python RNAseq metrics suit of tools
  ☆48Updated 6 years ago
• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆85Updated 3 weeks ago
• crazyhottommy / DNA-methylation-analysis
  DNA methylation analysis notes from Ming Tang
  ☆87Updated 5 years ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 years ago
• gkichaev / PAINTOR_V3.0
  Fast, integrative fine mapping with functional data
  ☆59Updated 5 years ago
• AAlhendi1707 / countToFPKM
  Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)
  ☆62Updated 4 years ago
• qtltools / qtltools
  A complete tool set for molecular QTL discovery and analysis
  ☆55Updated last year
• marvin-jens / find_circ
  tools to find circRNAs in RNA-seq data
  ☆43Updated 7 years ago
• RitchieLab / GWAS-QC
  Quality control steps for GWAS
  ☆23Updated last year
• fhormoz / caviar
  ☆60Updated 3 years ago
• stormlovetao / eQTLQC
  ☆26Updated 4 years ago
• jianhong / trackViewer
  A bioconductor package with minimalist design for drawing elegant tracks or lollipop plot
  ☆72Updated 3 weeks ago
• jlab-code / MethylStar
  A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
  ☆35Updated 3 years ago
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆58Updated 2 years ago
• saigegit / SAIGE
  Development for SAIGE and SAIGE-GENE(+)
  ☆77Updated this week
• PMBio / peer
  A factor analysis package
  ☆100Updated 13 years ago
• atgu / ukbb_pan_ancestry
  Analyses conducting GWAS across the UKBB diverse superpopulations
  ☆51Updated 2 months ago
• xihaoli / STAARpipeline-Tutorial
  The tutorial for performing single-/multi-trait association analysis of whole-genome/whole-exome sequencing (WGS/WES) studies using FAVOR…
  ☆30Updated 7 months ago
• jxzb1988 / MMQTL
  MMQTL is a statistical package applying meta-analysis to detect multiple QTL signals integrating signals among conditions, with control f…
  ☆11Updated 3 months ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆100Updated 8 months ago
• biocore-ntnu / snpflip
  Report reverse and ambiguous strand SNPs in GWAS data
  ☆33Updated 6 years ago
• andreyshabalin / MatrixEQTL
  Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
  ☆82Updated last year