Alternatives and similar repositories for qupath

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

• BIOP / qupath-extension-cellpose
  an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.
  ☆69Updated 3 weeks ago
• glencoesoftware / bioformats2raw
  Bio-Formats image file format to raw format converter
  ☆92Updated last week
• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆67Updated 8 months ago
• stardist / stardist-imagej
  StarDist plugin for ImageJ
  ☆30Updated 3 years ago
• AllenCellModeling / napari-aicsimageio
  Multiple file format reading directly into napari using pure Python
  ☆36Updated 10 months ago
• MarkZaidi / QuASI
  List of QuPath scripts for alignment and stain deconvolution of whole-slide histology images
  ☆25Updated 2 years ago
• peng-lab / BaSiCPy
  ☆81Updated 2 months ago
• tpecot / WholeSlideImageAnalysisWithQuPath
  ☆26Updated 3 weeks ago
• NHPatterson / wsireg
  multimodal whole slide image registration in a graph structure
  ☆85Updated 11 months ago
• glencoesoftware / raw2ometiff
  Raw format to OME-TIFF converter
  ☆53Updated last week
• TissUUmaps / TissUUmaps
  TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…
  ☆54Updated 2 weeks ago
• labsyspharm / ashlar
  ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
  ☆142Updated 3 months ago
• TheJacksonLaboratory / ezomero
  A module with convenience functions for writing Python code that interacts with OMERO.
  ☆45Updated this week
• qupath / qupath-extension-stardist
  QuPath extension to run StarDist nucleus detection
  ☆39Updated last month
• ksugar / qupath-extension-sam
  QuPath extension for Segment Anything Model (SAM)
  ☆108Updated 2 months ago
• piximi / piximi
  ☆35Updated this week
• AllenCellModeling / aicspylibczi
  Python module utilizing libCZI for reading Zeiss CZI files.
  ☆38Updated last month
• arjvik / QuPath-Scripting-Tools
  Toolkit to help develop and run QuPath scripts from Eclipse and other IDEs, including over remote connections. (See README.md for more in…
  ☆17Updated 4 years ago
• haesleinhuepf / napari-skimage-regionprops
  Feature extraction for labeled objects in images using regionprops from scikit-image
  ☆50Updated last month
• qupath / qubalab
  Lab for quantitative bioimage analysis experiments in Python
  ☆13Updated 4 months ago
• clij / clupath
  GPU-accelerated image processing in QuPath
  ☆15Updated 3 years ago
• qupath / qupath-extension-align
  QuPath extension to interactively align images
  ☆23Updated this week
• Bayer-Group / paquo
  PAthological QUpath Obsession - QuPath and Python conversations
  ☆115Updated 5 months ago
• BIOP / ijl-utilities-wrappers
  Wrappers for external software calls (Cellpose, Elastix, Ilastix...) and java utilities (object conversions and display)
  ☆37Updated last week
• KerenLab / CellSighter
  ☆33Updated last year
• labsyspharm / palom
  Piecewise alignment for layers of mosaics
  ☆24Updated last week
• CellProfiler / tutorials
  CellProfiler tutorial pipelines and images
  ☆93Updated 3 weeks ago
• ilastik / ilastik4ij
  ImageJ plugins to run ilastik workflows
  ☆25Updated 4 months ago
• haesleinhuepf / BioImageAnalysisNotebooks
  Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more
  ☆137Updated last week
• tlambert03 / napari-omero
  Browse your OMERO database from within napari.
  ☆37Updated this week