Alternatives and similar repositories for omnipose

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

• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆178Updated this week
• BiaPyX / BiaPy
  Open source Python library for building bioimage analysis pipelines
  ☆178Updated this week
• vanvalenlab / deepcell-label
  Cloud-based data annotation tools for biological images
  ☆81Updated last year
• kreshuklab / plant-seg
  A tool for cell instance aware segmentation in densely packed 3D volumetric images
  ☆115Updated this week
• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆67Updated 10 months ago
• peng-lab / BaSiCPy
  ☆85Updated 4 months ago
• HenriquesLab / DL4MicEverywhere
  Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images
  ☆80Updated 3 months ago
• instanseg / instanseg
  ☆176Updated last month
• royerlab / ultrack
  Cell tracking and segmentation software
  ☆127Updated last week
• AllenCellModeling / aicsimageio
  Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
  ☆215Updated 6 months ago
• AllenCell / aics-ml-segmentation
  ☆32Updated last week
• haesleinhuepf / BioImageAnalysisNotebooks
  Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more
  ☆141Updated 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
• weigertlab / trackastra
  Transformer-based cell tracking for live-cell microscopy
  ☆81Updated last week
• BiAPoL / napari-clusters-plotter
  A napari plugin for clustering objects according to their properties.
  ☆87Updated last week
• juglab / EmbedSeg
  Code Implementation for EmbedSeg, an Instance Segmentation Method for Microscopy Images
  ☆117Updated last year
• bioimage-io / archive.bioimage.io
  Website for the BioImage Model zoo -- a model zoo for bioimage analysis.
  ☆60Updated last month
• MouseLand / cellpose-napari
  napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool
  ☆55Updated 9 months ago
• aelefebv / nellie
  Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy
  ☆74Updated 4 months ago
• segment-anything-models-java / SAMJ-IJ
  An ImageJ/Fiji plugin designed to effortlessly integrate Segment-Anything models (SAMs) without code.
  ☆72Updated 2 weeks ago
• WhoIsJack / python-bioimage-analysis-tutorial
  A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.
  ☆98Updated 2 years ago
• vanvalenlab / intro-to-deepcell
  An introduction to deepcell and deep learning
  ☆151Updated 9 months ago
• labsyspharm / ashlar
  ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
  ☆144Updated 5 months ago
• mehta-lab / VisCy
  computer vision models for single-cell phenotyping
  ☆64Updated this week
• weigertlab / spotiflow
  Accurate and efficient spot detection for microscopy data
  ☆92Updated last week
• vanvalenlab / cellSAM
  Codebase for "A Foundation Model for Cell Segmentation"
  ☆100Updated this week
• AllenCell / aics-segmentation
  Part 1 of Allen Cell and Structure Segmenter: classic image segmentation workflow
  ☆26Updated last year
• deepimagej / deepimagej-plugin
  The ImageJ plugin to run deep-learning models
  ☆97Updated 2 weeks ago
• CellProfiler / tutorials
  CellProfiler tutorial pipelines and images
  ☆93Updated 3 months ago
• haesleinhuepf / bia-bob
  BIA Bob is a Jupyter+LLM-based assistant for interacting with image data and for working on Bio-image Analysis tasks.
  ☆117Updated this week