Alternatives and similar repositories for scGWAS

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

• immunogenomics / scHLApers
  Code to run the scHLApers pipeline for personalized single-cell HLA quantification
  ☆17Updated last year
• kkdey / GSSG
  Gene Set + S2G strategy annotations analyzed for disease architecture
  ☆55Updated 3 years ago
• horsedayday / eQTLsingle
  ☆15Updated 2 years ago
• kjgaulton / pipelines
  Analytical tools and pipelines for bulk and single cell epigenomic and human genetic data
  ☆27Updated 5 years ago
• secrierlab / EMT
  This repository contains code for the evaluation of epithelial-to-mesenchymal transition states in cancer.
  ☆13Updated 2 years ago
• karthikj89 / scgenetics
  identifying disease critical cell types and programs from single cell RNAseq
  ☆57Updated 3 years ago
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆47Updated 2 years ago
• dcalderon / rolypoly
  Method for identifying trait-relevant gene annotations from GWAS summary statistics.
  ☆18Updated 3 years ago
• aet21 / EpiSCORE
  Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
  ☆32Updated 7 months ago
• wenweixiong / MARVEL
  ☆51Updated last year
• molgenis / scRNA-seq
  ☆18Updated last year
• Siliegia / SIGMA
  R package for SIGMA, a clusterability measure for scRNA-seq data
  ☆12Updated 3 years ago
• omicsCore / scTyper
  scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
  ☆31Updated 2 years ago
• jbryois / scRNA_disease
  Code for our paper: https://www.biorxiv.org/content/10.1101/528463v1
  ☆18Updated 5 years ago
• ZikunY / CARMA
  GWAS genetics Fine-mapping method
  ☆26Updated last year
• ManchesterBioinference / IntegratingATAC-RNA-HiC
  scripts for the integrating ATAC-seq, RNA-seq and CHi-C paper
  ☆25Updated 3 years ago
• saezlab / footprints
  Analysis code for "Perturbation-response genes reveal signaling footprints in cancer gene expression"
  ☆20Updated 7 years ago
• elizabethdorans / pgBoost
  ☆16Updated 3 weeks ago
• caleblareau / bap
  Bead-based single-cell atac processing
  ☆33Updated 4 years ago
• cole-trapnell-lab / pseudospace
  ☆12Updated 6 years ago
• ChongJenniferZhang / CLCA_WGS
  ☆26Updated 2 years ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆44Updated 4 years ago
• tgen / banovichlab
  Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).
  ☆47Updated last year
• gusevlab / stratAS
  🌓 Allele specific analyses across cell states and conditions
  ☆10Updated 2 years ago
• shengxin321 / HumanKidney_eQTL_and_snATAC-seq
  codes used in the human kidney eQTL(cf) and eQTL(ci) and snATAC-seq data
  ☆19Updated 4 years ago
• single-cell-genetics / singlecell_endodiff_paper
  Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression
  ☆15Updated last year
• xiayh17 / RNAseqStat2
  ☆16Updated 2 years ago
• gxiaolab / scAllele
  ☆39Updated 2 months ago
• zgyaru / anti-PD1_ESCC
  ☆17Updated 2 years ago
• theislab / GWAS-scRNAseq-Integration
  A Shiny tool to define the cell-type of action by integrating single cell expression data with GWAS
  ☆12Updated 7 years ago