Alternatives and similar repositories for sopa

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

• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆108Updated 3 weeks ago
• plevritis-lab / CELESTA
  Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …
  ☆39Updated last year
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆132Updated 2 months ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆95Updated 2 years ago
• EliHei2 / segger_dev
  a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…
  ☆83Updated last week
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆149Updated last week
• yuqiyuqitan / SPACEc
  ☆59Updated last month
• scverse / spatialdata
  An open and interoperable data framework for spatial omics data
  ☆342Updated this week
• angelolab / ark-analysis
  Integrated pipeline for multiplexed image analysis
  ☆101Updated 3 weeks ago
• azizilab / starfysh
  Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology
  ☆128Updated 8 months ago
• SydneyBioX / BIDCell
  Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data
  ☆46Updated last year
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆51Updated this week
• ludvb / xfuse
  Super-resolved spatial transcriptomics by deep data fusion
  ☆73Updated 2 years ago
• Vizgen / vizgen-postprocessing
  The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.
  ☆35Updated last year
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆73Updated last year
• zcang / COMMOT
  ☆129Updated last year
• BiomedicalMachineLearning / stLearn
  A novel machine learning pipeline to analyse spatial transcriptomics data
  ☆238Updated 3 weeks ago
• fish-quant / ComSeg
  comseg
  ☆24Updated 11 months ago
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆148Updated last month
• kharchenkolab / Baysor
  Bayesian Segmentation of Spatial Transcriptomics Data
  ☆200Updated last year
• nolanlab / NeighborhoodCoordination
  Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…
  ☆71Updated last year
• BodenmillerGroup / steinbock
  A toolkit for processing multiplexed tissue images
  ☆67Updated last week
• elixir-europe-training / ELIXIR-SCO-spatial-omics
  ☆45Updated 9 months ago
• daviddaiweizhang / istar
  ☆158Updated last year
• scverse / spatialdata-io
  ☆88Updated this week
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆86Updated 2 months ago
• seqscope / ficture
  ☆44Updated 3 months ago
• prabhakarlab / Banksy_py
  BANKSY: Spatial Clustering Algorithm that Unifies Cell-Typing and Tissue Domain Segmentation. Python package for spatial transcriptomics …
  ☆72Updated 2 months ago
• rendeirolab / LazySlide
  Accessible and interoperable whole slide image analysis
  ☆175Updated last week
• rajewsky-lab / openst
  Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
  ☆110Updated 6 months ago