Alternatives and similar repositories for scran:

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

• elimereu / matchSCore2
  ☆53Updated 4 years ago
• Coolgenome / iTALK
  ☆59Updated 5 years ago
• GIS-SP-Group / RCA
  R package for robust clustering of single cell RNA sequencing data
  ☆38Updated last year
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆73Updated 4 years ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆38Updated 2 years ago
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆44Updated 4 years ago
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆95Updated 4 years ago
• rcannood / SCORPIUS
  Linear trajectory inference for single-cell RNA-seq
  ☆59Updated 11 months ago
• Oshlack / speckle
  R package for specialised analysis of single cell data
  ☆37Updated 2 years ago
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆75Updated 6 months ago
• powellgenomicslab / DropletQC
  Nuclear fraction QC metric to detect empty droplets and damaged cells in scRNA-seq data
  ☆35Updated 3 years ago
• maggiecrow / MetaNeighbor
  ☆49Updated 7 years ago
• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆51Updated last year
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆92Updated 3 years ago
• jackbibby1 / SCPA
  R package for pathway analysis in scRNA-seq data
  ☆71Updated 7 months ago
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆79Updated last year
• KlugerLab / DAseq
  ☆39Updated 3 years ago
• single-cell-genetics / cardelino
  Clone identification from single-cell data
  ☆61Updated 2 years ago
• shenorrLabTRDF / cellAlign
  ☆38Updated 4 years ago
• cole-trapnell-lab / cicero-release
  ☆59Updated 6 months ago
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆64Updated 8 months ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆58Updated 2 years ago
• ggjlab / scMCA
  Mouse cell atlas
  ☆60Updated 4 years ago
• bioinfoDZ / RISC
  A R package for integrated scRNA-seq data analysis using the RPCI algorithm
  ☆44Updated 11 months ago
• zijianni / SpotClean
  R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
  ☆31Updated 9 months ago
• cssmillie / ulcerative_colitis
  ☆60Updated 4 years ago
• tgen / banovichlab
  Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).
  ☆43Updated last year
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆81Updated 6 months ago
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆47Updated 3 years ago
• edsgard / trendsceek
  Identify genes with spatial expression trends in single-cell gene expression data
  ☆50Updated 6 years ago