Alternatives and similar repositories for SPOTlight:

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

• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆138Updated last month
• sunduanchen / Scissor
  Scissor package
  ☆206Updated 9 months ago
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆127Updated 6 months ago
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆100Updated 3 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆159Updated 2 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆192Updated 6 months ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆121Updated this week
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆143Updated 3 months ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆112Updated 5 months ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆181Updated this week
• neurorestore / Libra
  ☆162Updated 5 months ago
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆223Updated last year
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆156Updated last year
• navinlabcode / CellTrek
  ☆114Updated 2 years ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆102Updated 2 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆124Updated 2 months ago
• chuiqin / irGSEA
  The integration of single cell rank-based gene set enrichment analysis
  ☆119Updated 6 months ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆177Updated last week
• zktuong / ktplots
  Some tools for plotting single-cell data
  ☆167Updated last month
• Sijin-ZhangLab / PanMyeloid
  ☆98Updated 4 years ago
• Swarbricklab-code / BrCa_cell_atlas
  Data processing and analysis related code associated with the study "A single-cell and spatially resolved atlas of human breast cancers".
  ☆111Updated 4 months ago
• martinjzhang / scDRS
  Single-cell disease relevance score (scDRS)
  ☆119Updated 4 months ago
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆87Updated 6 months ago
• quadbio / Pando
  Multiome GRN inference.
  ☆118Updated 10 months ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆158Updated last year
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆154Updated 7 months ago
• swaruplab / Single-nuclei-epigenomic-and-transcriptomic-landscape-in-Alzheimer-disease
  Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease
  ☆89Updated 3 years ago
• constantAmateur / SoupX
  R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data
  ☆264Updated 2 years ago
• YMa-lab / CARD
  ☆106Updated last year
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆139Updated 3 years ago