Alternatives and similar repositories for scRNA-seq:

Users that are interested in scRNA-seq are comparing it to the libraries listed below

• bjstewart1 / kidney_sc_immune
  Repository for scRNAseq study of human kidneys
  ☆15Updated 5 years ago
• Japrin / scPip
  A pipeline for scRNA-seq data analysis
  ☆13Updated 2 weeks ago
• jbryois / scRNA_disease
  Code for our paper: https://www.biorxiv.org/content/10.1101/528463v1
  ☆18Updated 4 years ago
• tgen / banovichlab
  Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).
  ☆44Updated last year
• gxiaolab / scAllele
  ☆33Updated 11 months ago
• jlaffy / infercna
  Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data
  ☆35Updated last year
• smorabit / hdWGCNA_paper
  Code used to run the data analysis in the hdWGCNA manuscript (Morabito et al 2022)
  ☆16Updated last year
• omicsCore / scTyper
  scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
  ☆29Updated 2 years ago
• phillipnicol / scDist
  Robust identification of perturbed cell types in single-cell RNA-seq data
  ☆31Updated 4 months ago
• secrierlab / EMT
  This repository contains code for the evaluation of epithelial-to-mesenchymal transition states in cancer.
  ☆12Updated 2 years ago
• bsml320 / scGWAS
  A method which leverages scRNA-seq data to achieve two goals: (1) to infer the cell types in which the disease-associated genes manifest …
  ☆25Updated 2 years ago
• immunogenomics / sceQTL
  Code for single-cell eQTL analysis of memory T cell data in Nathan, et al. bioRxiv (2021)
  ☆19Updated last year
• califano-lab / single-cell-pipeline
  ☆46Updated 5 years ago
• nyuhuyang / scRNAseq-SSCs
  Identified novel mouse spermatogenesis biomarkers based on single-cell RNA sequencing data
  ☆11Updated 2 years ago
• miccec / yaGST
  ☆13Updated 7 years ago
• horsedayday / eQTLsingle
  ☆15Updated 2 years ago
• dengchunyu / scPagwas
  Obtain trait-relevant cell subpopulations by incorporating pathway activity transformed scRNA-seq data with GWAS data
  ☆18Updated 4 months 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
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆31Updated 3 years ago
• Morriseylab / scExtras
  ☆12Updated 9 months ago
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆43Updated last year
• jumphone / FitDevo
  FitDevo: accurate inference of single-cell developmental potential using sample-specific gene weight
  ☆16Updated last year
• Jiaxin-Fan / MuSiC2
  cell type deconvolution for multi-condition bulk RNA-seq data
  ☆24Updated 3 years ago
• arc85 / singleseqgset
  Gene set enrichment analysis for single-cell RNAseq data
  ☆27Updated 2 years ago
• lessonskit / Single-cell-RNA-sequencing-of-human-kidney
  R-code used for single-cell RNA-Seq analysis of kidney data.
  ☆17Updated 5 years ago
• amcdavid / CellaRepertorium
  Methods for clustering and analyzing high-throughput single cell immune cell repertoires (RepSeq)
  ☆15Updated 2 years ago
• supatt-lab / SingCellaR
  an integrative analysis tool for analysing large-scale single cell RNA-sequencing data
  ☆33Updated last year
• federicogiorgi / corto
  corto (Correlation Tool): an R package to generate correlation-based DPI networks
  ☆20Updated 2 years ago
• perou-lab / MultiK
  MultiK is a data-driven tool that objectively assesses the optimal number(s) of clusters based on the concept of consensus clustering via…
  ☆22Updated last year
• powellgenomicslab / DropletQC
  Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data
  ☆36Updated 3 years ago