Alternatives and similar repositories for qupath-groovy-python-runner

Users that are interested in qupath-groovy-python-runner are comparing it to the libraries listed below

• BIOP / ijl-utilities-wrappers
  Wrappers for external software calls (Cellpose, Elastix, Ilastix...) and java utilities (object conversions and display)
  ☆40Updated last month
• BIOP / qupath-extension-cellpose
  an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.
  ☆86Updated 3 weeks ago
• Kapoorlabs-CAPED / vollseg-napari
  Napari plugin for vollseg
  ☆14Updated 6 months ago
• BIOP / ijp-kheops
  ☆20Updated 3 weeks ago
• stardist / stardist-imagej
  StarDist plugin for ImageJ
  ☆30Updated 3 years ago
• peng-lab / leonardo_toolset
  ☆16Updated last week
• labsyspharm / palom
  Piecewise alignment for layers of mosaics
  ☆35Updated 5 months ago
• DanuserLab / u-segment3D
  Generate consensus 3D cells segmentations by combining 2D cell segmentations from any combination of xy, xz, yz views, compatible with ou…
  ☆55Updated last month
• ksugar / qupath-extension-cellsparse
  QuPath extension for Cellsparse
  ☆19Updated 9 months ago
• BiAPoL / Quantitative_Bio_Image_Analysis_with_Python_2022
  This repository hosts notebooks, information and data for the Quantitative Bio-Image Analysis with Python Course 2022.
  ☆16Updated 3 years ago
• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆70Updated last year
• stegmaierj / Cellpose3D
  3D Extension of the Cellpose Algorithm by Stringer et al., 2021.
  ☆35Updated 3 years ago
• haesleinhuepf / napari-segment-blobs-and-things-with-membranes
  A plugin based on scikit-image for segmenting nuclei and cells based on fluorescent microscopy images with high intensity in nuclei and/o…
  ☆30Updated 9 months ago
• bigdataviewer / bigdataviewer-playground
  ☆20Updated 2 weeks ago
• NEUBIAS / Defragmentation_TrainingSchool_EOSC-Life_2022
  "Defragmentation: bringing BioImage Analysts to the cloud!” training school for the new generation of bioimage analysts. Topics: workflow…
  ☆15Updated 2 years ago
• CamachoDejay / teaching-bioimage-analysis-python
  A place to collect information used in lectures, demos, workshops, etc.
  ☆17Updated last year
• haesleinhuepf / human-eval-bia
  Benchmarking Large Language Models for Bio-Image Analysis Code Generation
  ☆25Updated last year
• murphygroup / CellSegmentationEvaluator
  Evaluating the quality of a cell segmentation method without reference.
  ☆12Updated 6 months ago
• Sentinal4D / cellshape
  3D shape analysis using deep learning
  ☆29Updated 3 months ago
• RoccoDAnt / napari-zelda
  ZELDA: a 3D Image Segmentation and Parent to Child relation plugin for microscopy image analysis in napari
  ☆25Updated 2 months ago
• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆192Updated this week
• ahklemm / ImageJMacro_Introduction
  A first intoduction to scripting in Fiji using the ImageJ Macro language.
  ☆26Updated last year
• aelefebv / nellie
  Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy
  ☆88Updated 3 weeks ago
• haesleinhuepf / apoc
  Accelerated Pixel and Object Classifiers (APOC)
  ☆59Updated 6 months ago
• fractal-napari-plugins-collection / napari-feature-classifier
  ☆22Updated 7 months ago
• NEUBIAS / training-resources
  Resources for teaching/preparing to teach bioimage analysis
  ☆58Updated this week
• dlegland / mathematical_morphology_with_MorphoLibJ
  A collection of demonstration materials for MorphoLibJ.
  ☆12Updated 3 years ago
• clij / clupath
  GPU-accelerated image processing in QuPath
  ☆16Updated 4 years ago
• tpecot / WholeSlideImageAnalysisWithQuPath
  ☆30Updated 2 weeks ago
• baigouy / EPySeg
  ☆21Updated last year