Alternatives and similar repositories for spatialdata-sandbox

Users that are interested in spatialdata-sandbox are comparing it to the libraries listed below

• miti-consortium / MITI
  Minimum Information about Tissue Imaging
  ☆21Updated 2 years ago
• scverse / spatialdata-io
  ☆88Updated this week
• GuignardLab / napari-sc3D-viewer
  A plugin to visualise 3D spatial single cell omics
  ☆20Updated 3 months ago
• saeyslab / harpy
  Single-cell spatial proteomics analysis that makes you happy!
  ☆51Updated this week
• PreibischLab / STIM
  Library for managing, storage, viewing, and working with spatial transcriptomics data using Imglib2, N5, BigDataViewer and Fiji.
  ☆30Updated 8 months ago
• scverse / napari-spatialdata
  Interactive visualization of spatial omics data
  ☆75Updated last week
• HelenaLC / SpatialData
  ☆20Updated last month
• labsyspharm / cylinter
  An Interactive Image Segmentation Filter for Multiplex Microscopy
  ☆31Updated 3 months ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆39Updated 4 months ago
• saeyslab / napari-sparrow
  https://sparrow-pipeline.readthedocs.io/en/latest/
  ☆33Updated last week
• MannLabs / scPortrait
  scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images
  ☆105Updated last week
• VasylVaskivskyi / microaligner
  Image registration (alignment) software for large microscopy images
  ☆27Updated 2 years ago
• YeoLab / bento-tools
  A Python toolkit for subcellular analysis of spatial transcriptomics data
  ☆86Updated 2 months ago
• CellProfiling / pipex
  A pipeline to transform images into valuable analysis items
  ☆18Updated 7 months 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
• quentinblampey / spatialdata_xenium_explorer
  Interoperability between SpatialData and the Xenium Explorer
  ☆25Updated last year
• scverse / spatialdata-plot
  Static plotting for spatialdata
  ☆73Updated last week
• klarman-cell-observatory / PowerAnalysisForSpatialOmics
  ☆30Updated last year
• scverse / spatialdata-notebooks
  ☆65Updated last week
• vitessce / vitessce-python
  Python API and Jupyter widget for Vitessce
  ☆61Updated last week
• SydneyBioX / BIDCell
  Biologically-informed deep learning for cell segmentation of subcelluar spatial transcriptomics data
  ☆46Updated last year
• labsyspharm / scimap
  Spatial Single-Cell Analysis Toolkit
  ☆108Updated last month
• wanglab-broad / ClusterMap
  ClusterMap for multi-scale clustering analysis of spatial gene expression
  ☆45Updated 7 months ago
• plevritis-lab / CELESTA
  Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …
  ☆39Updated last year
• fish-quant / ComSeg
  comseg
  ☆24Updated last year
• TissUUmaps / TissUUmaps
  TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…
  ☆66Updated 2 months ago
• KerenLab / CellSighter
  ☆37Updated 2 years ago
• hubmapconsortium / spatial-transcriptomics-pipeline
  ☆29Updated last year
• BodenmillerGroup / steinbock
  A toolkit for processing multiplexed tissue images
  ☆67Updated 3 weeks ago
• Feanor007 / MESA
  A python package for Multiomics and Ecological Spatial Analysis (MESA)
  ☆24Updated 10 months ago