Alternatives and similar repositories for scater

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

• bvieth / powsimR
  Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially ex…
  ☆107Updated 2 years ago
• drisso / SingleCellExperiment
  Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCe…
  ☆75Updated 5 months ago
• PeeperLab / Rtoolbox
  Toolbox with R scripts
  ☆38Updated 7 years ago
• wjawaid / enrichR
  An R interface to enrichR
  ☆93Updated 10 months ago
• Bioconductor / OrchestratingSingleCellAnalysis
  Content for the OSCA Book.
  ☆66Updated 2 years ago
• drisso / bioc2016singlecell
  Bioconductor workshop: Analysis of single-cell RNA-seq data with R and Bioconductor
  ☆80Updated 9 years ago
• waldronlab / HGNChelper
  Identify and correct invalid gene symbols
  ☆60Updated last year
• davismcc / archive-scater
  An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.
  ☆64Updated 8 years ago
• YosefLab / scone
  ☆55Updated 9 months ago
• kevinblighe / scDataviz
  scDataviz: single cell dataviz and downstream analyses
  ☆65Updated 4 years ago
• LTLA / SingleCellThoughts
  Assorted thoughts, explanations and justifications for code in the scran package and the simpleSingleCell workflow.
  ☆47Updated 2 months ago
• MarioniLab / DropletUtils
  Clone of the Bioconductor repository for the DropletUtils package.
  ☆63Updated 3 months ago
• montilab / hypeR
  An R Package for Geneset Enrichment Workflows
  ☆76Updated 2 months ago
• JEFworks-Lab / HoneyBADGER
  HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data
  ☆99Updated 4 years ago
• iaconogi / bigSCale2
  Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data
  ☆107Updated 2 years ago
• bvieth / scRNA-seq-pipelines
  Compendium to "A Systematic Evaluation of Single Cell RNA-Seq Analysis Pipelines"
  ☆55Updated 4 years ago
• rnabioco / clustifyr
  Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
  ☆123Updated 7 months ago
• pachterlab / kallisto-transcriptome-indices
  Reference transcriptome indices build from kallisto for popular organisms
  ☆45Updated 2 years ago
• GabrielHoffman / variancePartition
  Quantify and interpret divers of variation in multilevel gene expression experiments
  ☆69Updated 2 weeks ago
• GIS-SP-Group / RCA
  R package for robust clustering of single cell RNA sequencing data
  ☆40Updated 2 years ago
• elimereu / matchSCore2
  ☆55Updated 4 years ago
• rezakj / iCellR
  iCellR is an interactive R package designed to facilitate the analysis and visualization of high-throughput single-cell sequencing data. …
  ☆126Updated 3 weeks ago
• crazyhottommy / scRNA-seq-workshop-Fall-2019
  Harvard FAS informatics scRNAseq workshop website
  ☆38Updated 6 years ago
• sandhya212 / BISCUIT_SingleCell_IMM_ICML_2016
  R Codebase for BISCUIT: Infinite Mixture Model to cluster and impute single cells.
  ☆66Updated 7 years ago
• catavallejos / BASiCS
  BASiCS: Bayesian Analysis of Single-Cell Sequencing Data. This is an unstable experimental version. Please see http://bioconductor.org/pa…
  ☆84Updated 2 months ago
• DavisLaboratory / singscore
  An R/Bioconductor package that implements a single-sample molecular phenotyping approach
  ☆46Updated last month
• sansomlab / tenx
  Pipelines for the analysis of 10x single-cell RNA-sequencing data
  ☆58Updated 2 years ago
• kevinrue / velociraptor
  Toolkit for Single-Cell Velocity
  ☆58Updated 5 months ago
• jdblischak / singleCellSeq
  Batch effects and the effective design of single-cell gene expression studies
  ☆104Updated 6 years ago
• caleblareau / BuenColors
  R package of colors for the Buenrostro Lab
  ☆86Updated last year