Alternatives and similar repositories for fgwas

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

• gkichaev / PAINTOR_V3.0
  Fast, integrative fine mapping with functional data
  ☆60Updated 6 years ago
• slowkow / snpsea
  Identify cell types and pathways affected by genetic risk loci.
  ☆36Updated last year
• andreyshabalin / MatrixEQTL
  Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
  ☆84Updated last year
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆68Updated 2 years ago
• natsuhiko / rasqual
  Robust Allele Specific Quantification and quality controL
  ☆40Updated 3 years ago
• xqwen / dap
  software package for integrative genetic association analysis
  ☆35Updated 2 years ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆71Updated 7 months ago
• statgen / locuszoom-standalone
  Create regional association plots from GWAS or meta-analysis
  ☆61Updated 5 years ago
• bogdanlab / focus
  FOCUS: Fine-mapping Of CaUsal gene Sets
  ☆46Updated 2 years ago
• gabraham / plink2R
  Read PLINK BED/BIM/FAM files into R
  ☆41Updated 4 years ago
• douglasyao / mesc
  Mediated Expression Score Regression (MESC)
  ☆26Updated 3 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated last year
• GreenleafLab / NucleoATACR
  R package for reading in & working with NucleoATAC outputs
  ☆26Updated 6 years ago
• gagneurlab / OUTRIDER
  OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data
  ☆53Updated last month
• brielin / Popcorn
  Software for estimating correlation of trait effect sizes across populations
  ☆47Updated 3 months ago
• brentp / combined-pvalues
  combining p-values using modified stouffer-liptak for spatially correlated results (probes)
  ☆46Updated 3 years ago
• jokergoo / rGREAT
  GREAT Analysis - Functional Enrichment on Genomic Regions
  ☆90Updated 5 months ago
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆71Updated last year
• PMBio / peer
  A factor analysis package
  ☆100Updated 13 years ago
• freeseek / gwaspipeline
  ☆40Updated 7 years ago
• nskvir / RepEnrich
  RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆28Updated 3 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• eQTL-Catalogue / qtlmap
  Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue
  ☆51Updated last month
• rhondabacher / SCnorm
  Normalization for single cell RNA-seq data
  ☆48Updated 2 months ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆36Updated 3 years ago
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆16Updated 6 years ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆43Updated 4 years ago
• slowkow / proxysnps
  Get SNP proxies from the 1000 Genomes Project.
  ☆30Updated 6 years ago
• timflutre / eqtlbma
  Package to detect eQTLs jointly in multiple subgroups (e.g. tissues) via Bayesian Model Averaging.
  ☆22Updated 7 years ago
• broadinstitute / gtex-v8
  Notebooks and scripts for reproducing analyses and figures from the V8 GTEx Consortium paper
  ☆41Updated 8 months ago