Alternatives and similar repositories for Stereopy

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

• digitalcytometry / ecotyper
  EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
  ☆208Updated last year
• dmcable / spacexr
  Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …
  ☆387Updated 3 weeks ago
• IanevskiAleksandr / sc-type
  ☆271Updated 8 months ago
• cellgeni / sceasy
  A package to help convert different single-cell data formats to each other
  ☆434Updated last year
• STOmics / SAW
  ☆167Updated 10 months ago
• dylkot / cNMF
  Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
  ☆355Updated 5 months ago
• Teichlab / celltypist
  A tool for semi-automatic cell type classification
  ☆395Updated this week
• scverse / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆278Updated 3 weeks ago
• aertslab / SCENICprotocol
  A scalable SCENIC workflow for single-cell gene regulatory network analysis
  ☆163Updated 2 years ago
• navinlabcode / copykat
  ☆247Updated last year
• aertslab / scenicplus
  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…
  ☆231Updated 6 months ago
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆220Updated 3 months ago
• saezlab / liana-py
  LIANA+: an all-in-one framework for cell-cell communication
  ☆224Updated 3 weeks ago
• Winnie09 / GPTCelltype
  ☆207Updated last year
• scverse / scanpy-tutorials
  Scanpy Tutorials.
  ☆219Updated last week
• ZJUFanLab / scCATCH
  Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
  ☆230Updated 2 years ago
• BayraktarLab / cell2location
  Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
  ☆372Updated last month
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆211Updated 10 months ago
• Starlitnightly / single_cell_tutorial
  单细胞分析的中文pipeline
  ☆231Updated last year
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆157Updated 4 months ago
• ventolab / CellphoneDB
  CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.
  ☆415Updated 2 months ago
• broadinstitute / CellBender
  CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.
  ☆345Updated last week
• genecell / single-cell-papers-with-code
  Papers with code for single cell related papers
  ☆291Updated 2 years ago
• Teichlab / cellphonedb
  ☆356Updated 3 years ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 4 years ago
• sunduanchen / Scissor
  Scissor package
  ☆230Updated last year
• morris-lab / CellOracle
  This is the alpha version of the CellOracle package
  ☆372Updated 7 months ago
• Lindseynicer / Analysing-10X-ScRNA-data-Wang-et-al-2020-Nat-Commun-
  I redo the ScRNA analysis in the paper of Wang et al 2020, Nat Comm. Here's my modified script for Helen He Zhu github (https://github.co…
  ☆12Updated 3 years ago
• crazyhottommy / awesome_spatial_omics
  tools and notes for spatial omics
  ☆311Updated 5 months ago
• JiekaiLab / scDIOR
  scDIOR: Single cell data IO softwaRe
  ☆145Updated 3 years ago