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 months ago
• CSOgroup / cellcharter
  A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.
  ☆130Updated last week
• Teichlab / bin2cell
  Join subcellular Visium HD bins into cells
  ☆122Updated 4 months ago
• drieslab / awesome-spatial-data-analysis
  Awesome list of tools and methods to perform spatial transcriptomic data analysis.
  ☆46Updated 4 years 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
• JEFworks-Lab / STalign
  Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
  ☆88Updated 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 …
  ☆86Updated 6 months ago
• nolanlab / NeighborhoodCoordination
  Code accompanying our manuscript "Coordinated cellular neighborhoods orchestrate antitumoral immunity at the colorectal cancer invasive f…
  ☆66Updated 10 months ago
• Lotfollahi-lab / nichecompass
  End-to-end analysis of spatial multi-omics data
  ☆93Updated last month
• yuqiyuqitan / SPACEc
  ☆47Updated 2 months ago
• Moldia / Xenium_benchmarking
  Code used to benchmark Xenium
  ☆66Updated last year
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆121Updated this week
• YMa-lab / CARD
  ☆123Updated last year
• raphael-group / GASTON
  GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data
  ☆59Updated 3 months ago
• digitalcytometry / cytospace
  CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data
  ☆132Updated 6 months ago
• TencentAILabHealthcare / spatialID
  ☆40Updated 2 years ago
• dpeerlab / ENVI
  ☆50Updated 3 months ago
• YosefLab / popV
  ☆80Updated last week
• raphael-group / paste
  Probabilistic Alignment of Spatial Transcriptomics Experiments
  ☆94Updated 6 months ago
• haniffalab / webatlas-pipeline
  A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
  ☆64Updated 2 months ago
• YangLabHKUST / STitch3D
  Construction of a 3D whole organism spatial atlas by joint modeling of multiple slices
  ☆66Updated last year
• prabhakarlab / Banksy
  BANKSY: spatial clustering
  ☆120Updated last month
• 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…
  ☆76Updated this week
• BIMSBbioinfo / VoltRon
  Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration
  ☆105Updated last week
• shuxiaoc / maxfuse
  ☆55Updated last year
• Teichlab / SpatialDE
  Test genes for Spatial Variation
  ☆176Updated last year
• YangLabHKUST / SpatialScope
  A unified approach for integrating spatial and single-cell transcriptomics data by leveraging deep generative models
  ☆73Updated last year
• almaan / stereoscope
  Spatial mapping of cell types by integration of transcriptomics data
  ☆94Updated 3 years ago
• raphael-group / paste2
  Probabilistic Alignment of Spatial Transcriptomics Experiments v.2
  ☆38Updated 6 months ago
• ShobiStassen / VIA
  trajectory inference
  ☆104Updated 7 months ago