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…
  ☆138Updated last month
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆113Updated last year
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆121Updated this week
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆96Updated 2 weeks ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆112Updated 5 months ago
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆156Updated last year
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆159Updated 2 months ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆139Updated 3 years ago
• basilkhuder / Seurat-to-RNA-Velocity
  A guide to using a Seurat object in conjunction with RNA Velocity
  ☆136Updated 3 years ago
• theislab / kBET
  An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.
  ☆158Updated last year
• saezlab / liana
  LIANA: a LIgand-receptor ANalysis frAmework
  ☆192Updated 6 months ago
• LewisLabUCSD / Ligand-Receptor-Pairs
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
  ☆128Updated 2 years ago
• quadbio / Pando
  Multiome GRN inference.
  ☆117Updated 10 months ago
• YosefLab / Compass
  In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
  ☆106Updated 3 weeks ago
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆189Updated 5 months ago
• carmonalab / UCell
  Gene set scoring for single-cell data
  ☆143Updated 3 months ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆102Updated last year
• saezlab / visium_heart
  Spatial transcriptomics of heart tissue
  ☆80Updated last year
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆124Updated 2 months ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆101Updated 4 months ago
• immunogenomics / symphony
  Efficient and precise single-cell reference atlas mapping with Symphony
  ☆102Updated 2 years ago
• YosefLab / popV
  ☆69Updated last week
• CahanLab / singleCellNet
  SingleCellNet: classify single cells across species and platforms
  ☆135Updated last year
• aertslab / cisTopic
  cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data
  ☆135Updated 10 months ago
• ncborcherding / utility
  Collection of Tumor-Infiltrating Lymphocyte Single-Cell Experiments with TCR
  ☆83Updated 7 months ago
• welch-lab / MultiVelo
  Multi-omic velocity inference
  ☆109Updated 3 months ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆149Updated 2 years ago
• theislab / scib-pipeline
  Snakemake pipeline that works with the scIB package to benchmark data integration methods.
  ☆68Updated 3 weeks ago
• martinjzhang / scDRS
  Single-cell disease relevance score (scDRS)
  ☆119Updated 4 months 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…
  ☆204Updated 3 weeks ago