Alternatives and similar repositories for scRNA-seq:

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

• Japrin / scPip
  A pipeline for scRNA-seq data analysis
  ☆13Updated last month
• tgen / banovichlab
  Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).
  ☆44Updated last year
• smorabit / hdWGCNA_paper
  Code used to run the data analysis in the hdWGCNA manuscript (Morabito et al 2022)
  ☆16Updated last year
• morris-lab / CellTagR
  This repository contains the CellTag data analysis R package to support clone calling and lineage reconstruction.
  ☆21Updated 2 years ago
• nyuhuyang / scRNAseq-SSCs
  Identified novel mouse spermatogenesis biomarkers based on single-cell RNA sequencing data
  ☆11Updated 2 years ago
• bjstewart1 / kidney_sc_immune
  Repository for scRNAseq study of human kidneys
  ☆15Updated 5 years ago
• jlaffy / infercna
  Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data
  ☆36Updated last year
• Morriseylab / scExtras
  ☆12Updated 9 months ago
• omicsCore / scTyper
  scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
  ☆29Updated 2 years ago
• arc85 / singleseqgset
  Gene set enrichment analysis for single-cell RNAseq data
  ☆27Updated 2 years ago
• gxiaolab / scAllele
  ☆33Updated last year
• Jiaxin-Fan / MuSiC2
  cell type deconvolution for multi-condition bulk RNA-seq data
  ☆25Updated 3 years ago
• powellgenomicslab / DropletQC
  Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data
  ☆37Updated 3 years ago
• atakanekiz / CIPR-Package
  Cluster Identity Predictor (R package implementation)
  ☆20Updated 3 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
• amcdavid / CellaRepertorium
  Methods for clustering and analyzing high-throughput single cell immune cell repertoires (RepSeq)
  ☆15Updated 2 years ago
• caleblareau / gchromVAR
  Cell type specific enrichments using finemapped variants and quantitative epigenetic data
  ☆45Updated last year
• jumphone / Vector
  Unsupervised Inference of Developmental Directions for Single Cells
  ☆21Updated last year
• horsedayday / eQTLsingle
  ☆15Updated 2 years ago
• JiekaiLab / SOT
  Single-cell Orientation Tracing
  ☆21Updated 3 years ago
• nghiavtr / SCmut
  ☆32Updated 5 years ago
• rikenbit / scTensor
  R package for detection of cell-cell interaction using Non-negative Tensor Decomposition
  ☆34Updated 2 years ago
• jbryois / scRNA_disease
  Code for our paper: https://www.biorxiv.org/content/10.1101/528463v1
  ☆18Updated 5 years ago
• kharchenkolab / cacoa
  Single-cell Case Control Analysis
  ☆48Updated 6 months ago
• miccec / yaGST
  ☆13Updated 7 years ago
• veltenlab / CloneTracer
  This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…
  ☆25Updated 6 months ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆39Updated 2 years ago
• califano-lab / single-cell-pipeline
  ☆46Updated 5 years ago
• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆31Updated 3 years ago
• KChen-lab / MEDALT
  Inference of Minimal Event Distance Aneuploidy Lineage Tree based on single cell copy number profile
  ☆19Updated last year