Alternatives and similar repositories for FlowSOM

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

• FelixTheStudent / cellpypes
  Cell type pipes for R
  ☆51Updated last year
• BodenmillerGroup / imcRtools
  An R package for handling and analysing imaging mass cytometry data
  ☆27Updated last week
• GfellerLab / SuperCell
  Coarse-graining of large single-cell RNA-seq data into metacells
  ☆85Updated last week
• cbib / Seurat-Integrate
  R package gathering a set of wrappers to apply various integration methods to Seurat objects (and rate such methods)
  ☆27Updated last month
• JEFworks-Lab / MERINGUE
  characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…
  ☆77Updated 3 years ago
• rikenbit / scTensor
  R package for detection of cell-cell interaction using Non-negative Tensor Decomposition
  ☆34Updated 3 weeks ago
• saezlab / CollecTRI
  Gene regulatory network containing signed transcription factor-target gene interactions
  ☆84Updated last month
• guokai8 / scGSVA
  scGSVA: Perform GSVA for single cell RNA seq
  ☆62Updated 8 months ago
• Oshlack / speckle
  R package for specialised analysis of single cell data
  ☆38Updated 2 years ago
• kevinrue / velociraptor
  Toolkit for Single-Cell Velocity
  ☆58Updated this week
• Elisseeff-Lab / domino
  A software package for connecting cell level features in single cell RNA sequencing data with receptor ligand activity. Please be aware t…
  ☆17Updated 7 months ago
• scverse / anndataR
  AnnData interoperability in R
  ☆84Updated this week
• niaid / dsb
  Normalize CITEseq Data
  ☆66Updated 3 months ago
• omnideconv / spacedeconv
  A unified interface to spatial transcriptomics deconvolution tools
  ☆41Updated last week
• carmonalab / STACAS
  R package for semi-supervised single-cell data integration
  ☆84Updated last month
• const-ae / lemur
  Latent Embedding Multivariate Regression
  ☆92Updated 7 months ago
• maggiecrow / MetaNeighbor
  ☆49Updated 7 years ago
• elimereu / matchSCore2
  ☆55Updated 4 years ago
• kevinblighe / scDataviz
  scDataviz: single cell dataviz and downstream analyses
  ☆63Updated 3 years ago
• oganm / homologene
  An r package that works as a wrapper to homologene
  ☆46Updated last year
• dynverse / anndata
  Annotated multivariate observation data in R
  ☆48Updated last month
• BaderLab / scClustViz
  Explore and share your scRNAseq clustering results
  ☆50Updated last year
• faryabib / too-many-cells
  Cluster single cells and analyze cell clade relationships with colorful visualizations.
  ☆45Updated 3 years ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆105Updated 2 years ago
• stemangiola / CuratedAtlasQueryR
  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.
  ☆92Updated 6 months ago
• shenorrLabTRDF / cellAlign
  ☆41Updated 4 years ago
• plger / pipeComp
  A R framework for pipeline benchmarking, with application to single-cell RNAseq
  ☆41Updated 3 years ago
• rcannood / SCORPIUS
  Linear trajectory inference for single-cell RNA-seq
  ☆59Updated last year
• MarioniLab / miloDE
  Framework for sensitive DE testing (using neighbourhoods)
  ☆70Updated 11 months ago
• KlugerLab / DAseq
  ☆41Updated 4 years ago