Alternatives and similar repositories for kasumi

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

• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆122Updated 4 months ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆135Updated this week
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆132Updated 7 months ago
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆120Updated last month
• 10XGenomics / HumanColonCancer_VisiumHD
  Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…
  ☆95Updated 3 months ago
• elixir-europe-training / ELIXIR-SCO-spatial-omics
  ☆41Updated 5 months ago
• Sanofi-Public / enact-pipeline
  Repository for ENACT pipeline for end-to-end analysis of Visium HD data
  ☆65Updated 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
• yuqiyuqitan / SPACEc
  ☆49Updated 3 months ago
• zcang / COMMOT
  ☆124Updated last year
• igrabski / sc-SHC
  Significance analysis for clustering single-cell RNA-sequencing data
  ☆119Updated last year
• saeyslab / multinichenetr
  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…
  ☆160Updated last month
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆66Updated last year
• earmingol / cell2cell
  User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
  ☆65Updated 3 weeks ago
• aerickso / SpatialInferCNV
  Clone Calling from Visium Spatial Transcriptomics of Cancer samples
  ☆80Updated 2 years ago
• JEFworks-Lab / STdeconvolve
  Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
  ☆144Updated last month
• Matrisome / MatrisomeAnalyzeR
  An R package for ECM molecule annotation, classification, and analysis
  ☆10Updated last year
• prabhakarlab / Banksy_py
  ☆62Updated last month
• YMa-lab / CARD
  ☆123Updated last year
• KlugerLab / GeneTrajectory
  R implementation of GeneTrajectory
  ☆65Updated last year
• Wei-BioMath / NeuronChat
  ☆40Updated 2 years ago
• axelalmet / flowsig
  Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.
  ☆77Updated 5 months ago
• digitalcytometry / cytotrace2
  CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.
  ☆170Updated 5 months ago
• yelabucsf / scrna-parameter-estimation
  Direct estimation of mean and covariance from single cell RNA seq experiments
  ☆117Updated 4 months 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
• Teichlab / cellhint
  A tool for semi-automatic cell type harmonization and integration
  ☆110Updated 6 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆88Updated last year
• almaan / stereoscope
  Spatial mapping of cell types by integration of transcriptomics data
  ☆94Updated 3 years ago
• carmonalab / GeneNMF
  Methods to discover gene programs on single-cell data
  ☆147Updated this week
• navinlabcode / CellTrek
  ☆125Updated 3 years ago