Alternatives and similar repositories for SEACells:

Users that are interested in SEACells 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…
  ☆144Updated 3 months ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆115Updated 7 months ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆126Updated 2 months ago
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆201Updated 8 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆163Updated 2 years ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆173Updated 2 weeks ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆104Updated 2 years ago
• quadbio / Pando
  Multiome GRN inference.
  ☆121Updated last year
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆106Updated 3 months ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆145Updated 5 months ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆104Updated 7 months ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆106Updated 3 months ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆162Updated last year
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆119Updated last year
• carmonalab / scGate
  marker-based purification of cell types from single-cell RNA-seq datasets
  ☆110Updated last week
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆149Updated last week
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆84Updated 10 months ago
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆114Updated last week
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆139Updated 3 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
  ☆121Updated 2 years ago
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆84Updated last year
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆104Updated last month
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆138Updated 3 years ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆131Updated 5 months ago
• ShobiStassen / VIA
  trajectory inference
  ☆97Updated 3 months ago
• swolock / scrublet
  Detect doublets in single-cell RNA-seq data
  ☆148Updated 4 years ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆129Updated 2 years ago
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆218Updated 3 months ago
• zktuong / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data
  ☆112Updated this week
• martinjzhang / scDRS
  Single-cell disease relevance score (scDRS)
  ☆127Updated 6 months ago