Alternatives and similar repositories for DeepLearningBasedSegmentationForBiologists

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

• stegmaierj / Cellpose3D
  3D Extension of the Cellpose Algorithm by Stringer et al., 2021.
  ☆35Updated 2 years ago
• stardist / stardist-imagej
  StarDist plugin for ImageJ
  ☆31Updated 3 years ago
• haesleinhuepf / BioImageAnalysisNotebooks
  Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more
  ☆143Updated 2 months ago
• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆67Updated 11 months ago
• tpecot / WholeSlideImageAnalysisWithQuPath
  ☆26Updated 3 months ago
• haesleinhuepf / apoc
  Accelerated Pixel and Object Classifiers (APOC)
  ☆56Updated last month
• haesleinhuepf / napari-skimage-regionprops
  Feature extraction for labeled objects in images using regionprops from scikit-image
  ☆51Updated 3 months ago
• nickdelgrosso / ABBA-QuPath-RegistrationAnalysis
  A visualization app for 3D-registered data processed in ABBA and QuPath
  ☆18Updated 2 years ago
• imagej / imagej.github.io
  The ImageJ wiki
  ☆28Updated this week
• Bayer-Group / paquo
  PAthological QUpath Obsession - QuPath and Python conversations
  ☆121Updated 8 months ago
• stardist / stardist-napari
  StarDist plugin for napari
  ☆40Updated last year
• NHPatterson / wsireg
  multimodal whole slide image registration in a graph structure
  ☆92Updated last year
• BiaPyX / BiaPy
  Open source Python library for building bioimage analysis pipelines
  ☆177Updated 2 weeks ago
• ahklemm / ImageJMacro_Introduction
  A first intoduction to scripting in Fiji using the ImageJ Macro language.
  ☆26Updated 11 months ago
• ksugar / qupath-extension-cellsparse
  QuPath extension for Cellsparse
  ☆19Updated 3 months ago
• BIOP / qupath-extension-cellpose
  an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.
  ☆77Updated 2 weeks ago
• Booritas / slideio
  ☆71Updated last week
• labsyspharm / palom
  Piecewise alignment for layers of mosaics
  ☆29Updated last month
• ksugar / qupath-extension-sam
  QuPath extension for Segment Anything Model (SAM)
  ☆117Updated last month
• 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 3 weeks ago
• maweigert / neubias_academy_stardist
  ☆31Updated 4 years ago
• BIOP / ijp-kheops
  ☆19Updated 3 weeks ago
• aelefebv / Mitometer
  Automated mitochondrial segmentation and tracking.
  ☆33Updated 3 years ago
• clij / clupath
  GPU-accelerated image processing in QuPath
  ☆15Updated 3 years ago
• BiAPoL / napari-clusters-plotter
  A napari plugin for clustering objects according to their properties.
  ☆87Updated this week
• MouseLand / cellpose-napari
  napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool
  ☆55Updated 10 months ago
• haesleinhuepf / human-eval-bia
  Benchmarking Large Language Models for Bio-Image Analysis Code Generation
  ☆23Updated 9 months ago
• peng-lab / BaSiCPy
  ☆87Updated 5 months ago
• aelefebv / nellie
  Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy
  ☆74Updated 4 months ago
• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆178Updated this week