Alternatives and similar repositories for single-cell-pipeline

Users that are interested in single-cell-pipeline are comparing it to the libraries listed below

• FloWuenne / scFunctions
  Functions for single cell data analysis
  ☆32Updated 4 years ago
• jlaffy / infercna
  Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data
  ☆43Updated last year
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆90Updated 3 months ago
• supatt-lab / SingCellaR
  an integrative analysis tool for analysing large-scale single cell RNA-sequencing data
  ☆35Updated 2 years ago
• Teichlab / Genes2Genes
  Aligning gene expression trajectories of single-cell reference and query systems
  ☆76Updated 2 months ago
• haniffalab / scRNA-seq_analysis
  Single cell RNA-seq analysis bundle
  ☆37Updated 6 years ago
• mbourgey / scRNA_GBM
  analysis script for GBM single cell RNA seq data
  ☆22Updated 4 years ago
• phillipnicol / scDist
  Robust identification of perturbed cell types in single-cell RNA-seq data
  ☆34Updated 11 months ago
• Morriseylab / scExtras
  ☆13Updated last year
• bioinfoDZ / RISC
  A R package for integrated scRNA-seq data analysis using the RPCI algorithm
  ☆44Updated last year
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆75Updated 4 years ago
• califano-lab / PISCES
  R package for Protein activity analysis of single-cell RNAseq.
  ☆84Updated 2 years ago
• gabrielakinker / CCLE_heterogeneity
  ☆59Updated last year
• arc85 / celltalker
  Inference of cell-cell communication from single-cell RNAseq data
  ☆48Updated 6 months ago
• spcdot / CopyscAT
  Inferring CNV data from single cell ATAC seq
  ☆24Updated 4 months ago
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆95Updated last year
• tgen / banovichlab
  Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).
  ☆47Updated last year
• Coolgenome / iTALK
  ☆62Updated 6 years ago
• LungCellAtlas / scRNAseq_pipelines
  Repository for the building, sharing and editing of scRNAseq pipelines for the Lung Cell Atlas
  ☆39Updated 4 years ago
• veltenlab / CloneTracer
  This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…
  ☆26Updated last year
• KlugerLab / DAseq
  ☆41Updated 4 years ago
• liziyie / scDVA
  An R shiny based tool used for single cell RNA-seq data visualization and analysis.
  ☆34Updated 4 years ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 2 years ago
• mahmoudibrahim / genesorteR
  Feature Ranking in (possibly large) Clustered Single Cell Data
  ☆40Updated 4 years ago
• buenrostrolab / FigR
  Functional Inference of Gene Regulation
  ☆48Updated last year
• cssmillie / ulcerative_colitis
  ☆63Updated 5 years ago
• ZJUFanLab / CellTalkDB
  A manually curated database of literature-supported ligand-receptor interactions in human and mouse
  ☆30Updated last year
• arc85 / singleseqgset
  Gene set enrichment analysis for single-cell RNAseq data
  ☆28Updated 2 years ago
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆33Updated last year
• haniffalab / FCA_liver
  All software used for “Decoding human fetal liver haematopoiesis” (Popescu, Botting, Stephenson et al., 2019).
  ☆39Updated 5 years ago