Alternatives and similar repositories for bin2cell

Users that are interested in bin2cell are comparing it to the libraries listed below

• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆120Updated last month
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆130Updated this week
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆132Updated 6 months ago
• Sanofi-Public / enact-pipeline
  Repository for ENACT pipeline for end-to-end analysis of Visium HD data
  ☆62Updated 3 months ago
• theislab / spatial_scog_workshop_2022
  Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022
  ☆53Updated 3 years ago
• 10XGenomics / HumanColonCancer_VisiumHD
  Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…
  ☆94Updated 3 months ago
• YMa-lab / CARD
  ☆123Updated last year
• aerickso / SpatialInferCNV
  Clone Calling from Visium Spatial Transcriptomics of Cancer samples
  ☆78Updated 2 years ago
• almaan / stereoscope
  Spatial mapping of cell types by integration of transcriptomics data
  ☆94Updated 3 years ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆66Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆156Updated last month
• YosefLab / Hotspot
  ☆123Updated 4 months ago
• zcang / COMMOT
  ☆124Updated last year
• navinlabcode / CellTrek
  ☆125Updated 3 years ago
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆110Updated 5 months ago
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆118Updated last year
• emdann / milopy
  Python implementation of Milo for differential abundance testing on KNN graph
  ☆74Updated 6 months ago
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆111Updated 11 months ago
• dpeerlab / SEACells
  SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data
  ☆167Updated 5 months ago
• ShobiStassen / VIA
  trajectory inference
  ☆104Updated 7 months ago
• theislab / zellkonverter
  Conversion between scRNA-seq objects
  ☆184Updated 2 weeks ago
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆86Updated 6 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆116Updated 4 months ago
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆64Updated last week
• changwn / scFEA
  single cell Flux Estimation Analysis (scFEA) Try the below web server!
  ☆130Updated last year
• tiroshlab / 3ca
  Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".
  ☆124Updated last year
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆142Updated last month
• theislab / scCODA
  A Bayesian model for compositional single-cell data analysis
  ☆173Updated 2 years ago
• cellgeni / schard
  reticulate-free single cell format conversion
  ☆184Updated last month
• 10XGenomics / janesick_nature_comms_2023_companion
  Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spat…
  ☆25Updated last year