Alternatives and similar repositories for SCAFE

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

• cole-trapnell-lab / cicero-release
  ☆59Updated last year
• statgen / popscle
  A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…
  ☆58Updated 4 years ago
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆44Updated 5 years ago
• chris-mcginnis-ucsf / MULTI-seq
  R implementation of MULTI-seq sample classification workflow
  ☆65Updated 2 years ago
• MarioniLab / EmbryoTimecourse2018
  Data and analysis scripts for our Embryo Timecourse paper.
  ☆68Updated 6 years ago
• dbrg77 / plate_scATAC-seq
  A rapid and robust plate-based single cell ATAC-seq (scATAC-seq) method
  ☆43Updated 4 years ago
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆82Updated 3 years ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆53Updated 2 years ago
• CFeregrino / scWGCNA
  scWGCNA
  ☆61Updated 3 years ago
• kharchenkolab / dropEst
  Pipeline for initial analysis of droplet-based single-cell RNA-seq data
  ☆95Updated 3 years ago
• wenweixiong / MARVEL
  ☆53Updated last year
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆75Updated 5 years ago
• gillislab / MetaNeighbor
  A method to rapidly assess cell type identity using both functional and random gene sets
  ☆39Updated last year
• alexisvdb / singleCellHaystack
  Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
  ☆86Updated 2 months ago
• nghiavtr / SCmut
  ☆34Updated 6 years ago
• lanagarmire / SSrGE
  ☆34Updated 6 years ago
• jon-xu / scSplit
  Genotype-free demultiplexing of pooled single-cell RNA-Seq, using a hidden state model for identifying genetically distinct samples withi…
  ☆41Updated 2 years ago
• McGranahanLab / TcellExTRECT
  ☆48Updated last year
• vib-singlecell-nf / vsn-pipelines
  A repository of pipelines for single-cell data in Nextflow DSL2
  ☆80Updated 2 years ago
• wmacnair / psupertime
  psupertime is pseudotime ordering for single cell RNA-seq data with sequential labels
  ☆46Updated 3 years ago
• elimereu / matchSCore2
  ☆56Updated 5 years ago
• JunyueC / sci-RNA-seq3_pipeline
  Processing pipeline scripts for sci-RNA-seq3 (bash, R, python)
  ☆45Updated 4 years ago
• UcarLab / AMULET
  A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.
  ☆32Updated 3 years ago
• lhe17 / nebula
  ☆46Updated 2 months ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆63Updated 2 months ago
• 10XGenomics / subset-bam
  ☆82Updated 2 years ago
• huangyh09 / brie
  BRIE: Bayesian Regression for Isoform Estimate in Single Cells
  ☆42Updated last year
• timoast / sinto
  Tools for single-cell data processing
  ☆132Updated last year
• yal054 / snATACutils
  ☆28Updated last year
• hemberg-lab / scmap
  A tool for unsupervised projection of single cell RNA-seq data
  ☆96Updated 5 years ago