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 2 months ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆45Updated 4 years ago
• yuqiyuqitan / SPACEc
  ☆47Updated 2 months ago
• raphael-group / GASTON
  GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data
  ☆59Updated 2 months ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆130Updated 2 weeks ago
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆86Updated last year
• ludvb / xfuse
  Super-resolved spatial transcriptomics by deep data fusion
  ☆74Updated 2 years ago
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆90Updated 2 weeks 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
• shuxiaoc / maxfuse
  ☆55Updated last year
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆65Updated last year
• jfnavarro / st_pipeline
  ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …
  ☆85Updated 5 months ago
• dpeerlab / ENVI
  ☆50Updated 3 months ago
• raphael-group / paste
  Probabilistic Alignment of Spatial Transcriptomics Experiments
  ☆90Updated 6 months ago
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆114Updated last week
• ZhangLabGT / scMultiSim
  A simulator for single cell multi-omics and spatial omics data that provides ground truth to benchmark a wide range of methods.
  ☆59Updated 7 months ago
• GuangyuWangLab2021 / cellDancer
  Predict RNA velocity through deep learning
  ☆70Updated last year
• TencentAILabHealthcare / spatialID
  ☆40Updated 2 years ago
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆115Updated 3 months ago
• YangLabHKUST / STitch3D
  Construction of a 3D whole organism spatial atlas by joint modeling of multiple slices
  ☆66Updated last year
• simonwm / tacco
  TACCO: Transfer of Annotations to Cells and their COmbinations
  ☆52Updated last year
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆133Updated 6 months ago
• raphael-group / paste2
  Probabilistic Alignment of Spatial Transcriptomics Experiments v.2
  ☆37Updated 5 months ago
• YosefLab / popV
  ☆82Updated last week
• nolanlab / NeighborhoodCoordination
  Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…
  ☆64Updated 9 months ago
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆64Updated last month
• tanaylab / metacells
  Metacells - Single-cell RNA Sequencing Analysis
  ☆111Updated 11 months ago
• nolanlab / CODEX
  Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation
  ☆48Updated 3 years ago
• yunguan-wang / SPROD
  SPROD: Spatial expression profiling de-noising
  ☆37Updated 2 years ago
• YMa-lab / CARD
  ☆123Updated last year