Alternatives and similar repositories for openst

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

• azizilab / starfysh
  Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology
  ☆119Updated 3 weeks ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆126Updated this week
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆78Updated 3 months ago
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆111Updated last month
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆80Updated last year
• ludvb / xfuse
  Super-resolved spatial transcriptomics by deep data fusion
  ☆74Updated 2 years ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆69Updated last year
• dpeerlab / ENVI
  ☆48Updated last month
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆113Updated 2 weeks ago
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆101Updated this week
• nolanlab / NeighborhoodCoordination
  Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…
  ☆62Updated 7 months ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆129Updated 4 months ago
• yuqiyuqitan / SPACEc
  ☆43Updated 2 weeks ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆63Updated 11 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
• YosefLab / popV
  ☆78Updated this week
• MICS-Lab / novae
  Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…
  ☆49Updated last week
• shuxiaoc / maxfuse
  ☆53Updated last year
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆67Updated last year
• BayraktarLab / cell2fate
  Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.
  ☆75Updated 3 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 …
  ☆84Updated 3 months ago
• zcang / COMMOT
  ☆118Updated last year
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆43Updated 3 years ago
• scverse / spatialdata-notebooks
  ☆53Updated last week
• YangLabHKUST / STitch3D
  Construction of a 3D whole organism spatial atlas by joint modeling of multiple slices
  ☆65Updated last year
• yunguan-wang / SPROD
  SPROD: Spatial expression profiling de-noising
  ☆37Updated 2 years ago
• elixir-europe-training / ELIXIR-SCO-spatial-omics
  ☆38Updated 2 months ago
• Nanostring-Biostats / CosMx-Analysis-Scratch-Space
  This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…
  ☆71Updated this week
• prabhakarlab / Banksy_py
  ☆54Updated 6 months ago
• leihouyeung / STdeconv_benchmark
  The benchmarking of spatial transcriptomics deconvolution methods
  ☆32Updated 2 years ago