Alternatives and similar repositories for cellpose:

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

• stardist / stardist
  StarDist - Object Detection with Star-convex Shapes
  ☆1,025Updated 6 months ago
• HenriquesLab / ZeroCostDL4Mic
  ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy
  ☆598Updated 2 weeks ago
• vanvalenlab / deepcell-tf
  Deep Learning Library for Single Cell Analysis
  ☆446Updated 7 months ago
• computational-cell-analytics / micro-sam
  Segment Anything for Microscopy
  ☆527Updated this week
• imagej / pyimagej
  Use ImageJ from Python
  ☆499Updated this week
• trackmate-sc / TrackMate
  TrackMate is your buddy for your everyday tracking.
  ☆188Updated 2 weeks ago
• CellProfiler / CellProfiler
  An open-source application for biological image analysis
  ☆973Updated this week
• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆156Updated this week
• CSBDeep / CSBDeep
  Image restoration for fluorescence microscopy
  ☆304Updated 6 months ago
• clEsperanto / pyclesperanto_prototype
  GPU-accelerated bio-image analysis focusing on 3D+t microscopy image data
  ☆224Updated 2 months ago
• AllenCellModeling / aicsimageio
  Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
  ☆213Updated 3 months ago
• sartorius-research / LIVECell
  ☆187Updated last year
• ilastik / ilastik
  ilastik-shell, applets, and workflows to string them together.
  ☆368Updated 3 weeks ago
• vanvalenlab / intro-to-deepcell
  An introduction to deepcell and deep learning
  ☆145Updated 6 months ago
• BiAPoL / Bio-image_Analysis_with_Python
  Lecture materials "Bio-image analysis, biostatistics, programming and machine learning for computational biology" at the Center of Molecu…
  ☆207Updated last year
• stjude / punctatools
  Detection, colocalization, and quantification of spots / puncta
  ☆12Updated 2 years ago
• kevinjohncutler / omnipose
  Omnipose: a high-precision solution for morphology-independent cell segmentation
  ☆112Updated this week
• RMS-DAIM / Python-for-Bioimage-Analysis
  This is the repository for a Python bioimage analysis course which establishes the fundamentals of image analysis in the context of biolo…
  ☆133Updated 5 years ago
• qupath / qupath
  QuPath - Open-source bioimage analysis for research
  ☆1,143Updated last week
• BiaPyX / BiaPy
  Open source Python library for building bioimage analysis pipelines
  ☆147Updated this week
• fish-quant / big-fish-examples
  Notebooks to illustrate how BigFISH is working.
  ☆13Updated 2 years ago
• brainglobe / cellfinder
  Automated 3D cell detection in very large images
  ☆216Updated last week
• blakeliu / awesome-cell-detection-segmentation
  nucleus/cell and histopathology image classification,detection,segmentation
  ☆253Updated 4 years ago
• AllenCellModeling / pytorch_fnet
  Three dimensional cross-modal image inference
  ☆155Updated 4 years ago
• vqdang / hover_net
  Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.
  ☆588Updated last year
• MouseLand / suite2p
  cell detection in calcium imaging recordings
  ☆378Updated 3 weeks ago
• TissueImageAnalytics / tiatoolbox
  Computational Pathology Toolbox developed by TIA Centre, University of Warwick.
  ☆418Updated last week
• FZJ-INM1-BDA / celldetection
  Scalable Instance Segmentation using PyTorch & PyTorch Lightning.
  ☆134Updated this week
• quantumjot / btrack
  Bayesian multi-object tracking
  ☆320Updated this week
• WenChentao / 3DeeCellTracker
  A python algorithm for tracking cells in 3D time lapse images.
  ☆57Updated 2 weeks ago