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…
  ☆178Updated 4 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆227Updated last year
• sunduanchen / Scissor
  Scissor package
  ☆247Updated last year
• wu-yc / scMetabolism
  Quantifying metabolism activity at the single-cell resolution
  ☆149Updated 6 months ago
• plger / scDblFinder
  Methods for detecting doublets in single-cell sequencing data
  ☆223Updated 3 weeks ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆201Updated last month
• YMa-lab / CARD
  ☆129Updated last year
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆168Updated 3 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆185Updated 2 years ago
• neurorestore / Augur
  Cell type prioritization in single-cell data
  ☆132Updated last year
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆236Updated 2 years ago
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆132Updated 2 months ago
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆176Updated 2 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆195Updated 2 weeks ago
• PaulingLiu / ROGUE
  Assessing the purity of single cell population
  ☆140Updated 3 years ago
• mojaveazure / seurat-disk
  Interfaces for HDF5-based Single Cell File Formats
  ☆170Updated 2 years ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆137Updated 10 months ago
• enblacar / SCpubr
  Generate high quality, publication ready visualizations for single cell transcriptomics data.
  ☆213Updated 2 weeks ago
• zktuong / ktplots
  Some tools for plotting single-cell data
  ☆176Updated 7 months ago
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆210Updated 2 weeks ago
• neurorestore / Libra
  ☆181Updated 8 months ago
• aertslab / AUCell
  AUCell: score single cells with gene regulatory networks
  ☆180Updated last year
• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆226Updated last year
• navinlabcode / CellTrek
  ☆126Updated 3 years ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆124Updated last year
• Sijin-ZhangLab / PanMyeloid
  ☆113Updated 5 years ago
• Dragonmasterx87 / Interactive-3D-Plotting-in-Seurat-3.0.0
  This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data
  ☆122Updated 2 years ago
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆141Updated 2 years ago
• carmonalab / ProjecTILs
  Interpretation of cell states using reference single-cell maps
  ☆303Updated 3 weeks ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆140Updated 4 years ago