Alternatives and similar repositories for CATALYST:

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

• niaid / dsb
  Normalize CITEseq Data
  ☆65Updated last week
• HelenaLC / muscat
  Multi-sample multi-group scRNA-seq analysis tools
  ☆186Updated last week
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆160Updated last year
• powellgenomicslab / Nebulosa
  R package to visualize gene expression data based on weighted kernel density estimation
  ☆101Updated last year
• JinmiaoChenLab / cytofkit
  cytofkit: an integrated flow/mass cytometry data analysis pipeline
  ☆57Updated 4 years ago
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆107Updated 2 months ago
• const-ae / lemur
  Latent Embedding Multivariate Regression
  ☆87Updated 4 months ago
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆81Updated 3 weeks ago
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆64Updated 8 months ago
• crazyhottommy / scclusteval
  Single Cell Cluster Evaluation
  ☆94Updated 3 years ago
• theislab / destiny
  R package for single cell and other data analysis using diffusion maps
  ☆85Updated 5 months ago
• rcannood / SCORPIUS
  Linear trajectory inference for single-cell RNA-seq
  ☆59Updated last year
• stemangiola / CuratedAtlasQueryR
  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
  ☆90Updated 4 months ago
• RausellLab / CelliD
  Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.
  ☆94Updated last year
• quadbio / Pando
  Multiome GRN inference.
  ☆120Updated last year
• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆51Updated last year
• csoneson / conquer_comparison
  Code for evaluation of differential expression methods in single-cell RNA-seq data
  ☆112Updated 4 years ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆171Updated last week
• saeyslab / FlowSOM
  Using self-organizing maps for visualization and interpretation of cytometry data
  ☆27Updated last month
• JEFworks-Lab / MERINGUE
  characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…
  ☆72Updated 2 years ago
• drisso / SingleCellExperiment
  Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCe…
  ☆72Updated last month
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆77Updated 7 months ago
• BorchLab / escape
  Easy single cell analysis platform for enrichment
  ☆168Updated 3 weeks ago
• mojaveazure / loomR
  An R-based interface for loom files
  ☆66Updated 4 years ago
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆148Updated 5 months ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆84Updated 9 months ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆115Updated 7 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆104Updated 2 years ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆152Updated last year
• EDePasquale / DoubletDecon
  A tool for removing doublets from single-cell RNA-seq data
  ☆73Updated 4 years ago