Alternatives and similar repositories for DeepLearningBasedSegmentationForBiologists:

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

• tpecot / WholeSlideImageAnalysisWithQuPath
  ☆24Updated last month
• stardist / stardist-imagej
  StarDist plugin for ImageJ
  ☆27Updated 2 years ago
• ahklemm / ImageJMacro_Introduction
  A first intoduction to scripting in Fiji using the ImageJ Macro language.
  ☆24Updated 4 months ago
• maweigert / neubias_academy_stardist
  ☆30Updated 3 years ago
• stardist / stardist-napari
  StarDist plugin for napari
  ☆37Updated 5 months ago
• haesleinhuepf / apoc
  Accelerated Pixel and Object Classifiers (APOC)
  ☆54Updated 2 years ago
• clij / clupath
  GPU-accelerated image processing in QuPath
  ☆15Updated 3 years ago
• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆65Updated 4 months ago
• apeer-micro / apeer-ometiff-library
  Easily read and write ome-tiff images in python
  ☆26Updated 9 months ago
• haesleinhuepf / napari-accelerated-pixel-and-object-classification
  GPU-accelerated, OpenCL-based Random Forest Classifiers for pixel and labeled object classification in napari.
  ☆43Updated last year
• haesleinhuepf / BioImageAnalysisNotebooks
  Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more
  ☆130Updated this week
• ksugar / qupath-extension-cellsparse
  QuPath extension for Cellsparse
  ☆18Updated 2 months ago
• BIOP / qupath-groovy-python-runner
  A proof of concept to run python segmentations and recovering the results within QuPath
  ☆19Updated 4 years ago
• Kapoorlabs-CAPED / VollSeg
  Segmentation method able to detect membrane/nuclei-labelled cells with low signal-to-noise ratio and dense packing in 2D and 3D. Availabl…
  ☆33Updated 2 months ago
• pmascalchi / ImageJ_Export-LIF-as-Individual-Images
  ImageJ / Fiji macro to automatically export Leica LIF file as individual images (batch mode available)
  ☆11Updated 3 years ago
• imagej / imagej.github.io
  The ImageJ wiki
  ☆27Updated this week
• neurobiology-ut / PHILOW
  Python-based Human-In-the-LOop Workflow: PHILOW is an interactive deep learning-based platform for 3D datasets
  ☆26Updated this week
• BiAPoL / napari-clusters-plotter
  A napari plugin for clustering objects according to their properties.
  ☆82Updated this week
• ilastik / ilastik4ij
  ImageJ plugins to run ilastik workflows
  ☆23Updated 2 weeks ago
• stegmaierj / Cellpose3D
  3D Extension of the Cellpose Algorithm by Stringer et al., 2021.
  ☆32Updated 2 years ago
• MarkZaidi / QuASI
  List of QuPath scripts for alignment and stain deconvolution of whole-slide histology images
  ☆24Updated 2 years ago
• BIOP / qupath-extension-cellpose
  an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.
  ☆67Updated 5 months ago
• haesleinhuepf / human-eval-bia
  Benchmarking Large Language Models for Bio-Image Analysis Code Generation
  ☆22Updated 2 months ago
• BIOP / ijp-kheops
  ☆16Updated this week
• TheJacksonLaboratory / ezomero
  A module with convenience functions for writing Python code that interacts with OMERO.
  ☆41Updated 3 months ago
• jo-mueller / Slice2Volume
  Script that registers Histology slices to volumetric image data
  ☆11Updated last year
• AllenCellModeling / napari-aicsimageio
  Multiple file format reading directly into napari using pure Python
  ☆35Updated 6 months ago
• BIOP / ijl-utilities-wrappers
  Wrappers for external software calls (Cellpose, Elastix, Ilastix...) and java utilities (object conversions and display)
  ☆34Updated last month
• baigouy / EPySeg
  ☆22Updated 11 months ago