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
  ☆979Updated 4 months ago
• HenriquesLab / ZeroCostDL4Mic
  ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy
  ☆576Updated this week
• vanvalenlab / deepcell-tf
  Deep Learning Library for Single Cell Analysis
  ☆436Updated 5 months ago
• computational-cell-analytics / micro-sam
  Segment Anything for Microscopy
  ☆420Updated this week
• imagej / pyimagej
  Use ImageJ from Python
  ☆489Updated 3 weeks ago
• sartorius-research / LIVECell
  ☆185Updated last year
• CellProfiler / CellProfiler
  An open-source application for biological image analysis
  ☆953Updated this week
• trackmate-sc / TrackMate
  TrackMate is your buddy for your everyday tracking.
  ☆179Updated this week
• clEsperanto / pyclesperanto_prototype
  GPU-accelerated bio-image analysis focusing on 3D+t microscopy image data
  ☆217Updated 4 months ago
• CSBDeep / CSBDeep
  Image restoration for fluorescence microscopy
  ☆294Updated 4 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…
  ☆201Updated last year
• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆145Updated this week
• AllenCellModeling / aicsimageio
  Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
  ☆209Updated last month
• fish-quant / big-fish-examples
  Notebooks to illustrate how BigFISH is working.
  ☆13Updated 2 years ago
• vanvalenlab / intro-to-deepcell
  An introduction to deepcell and deep learning
  ☆144Updated 3 months ago
• vqdang / hover_net
  Simultaneous Nuclear Instance Segmentation and Classification in H&E Histology Images.
  ☆556Updated last year
• oist / Usiigaci
  Usiigaci: stain-free cell tracking in phase contrast microscopy enabled by supervised machine learning
  ☆195Updated 4 years ago
• stjude / punctatools
  Detection, colocalization, and quantification of spots / puncta
  ☆12Updated last year
• ilastik / ilastik
  ilastik-shell, applets, and workflows to string them together.
  ☆354Updated last week
• CellProfiler / tutorials
  CellProfiler tutorial pipelines and images
  ☆89Updated 3 months ago
• MouseLand / suite2p
  cell detection in calcium imaging recordings
  ☆370Updated last month
• ANTsX / ANTs
  Advanced Normalization Tools (ANTs)
  ☆1,254Updated this week
• DeepTrackAI / DeepTrack2
  DeepTrack2 is a modular Python library for generating, manipulating, and analyzing image data pipelines for machine learning and experime…
  ☆184Updated 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 4 years ago
• kevinjohncutler / omnipose
  Omnipose: a high-precision solution for morphology-independent cell segmentation
  ☆107Updated this week
• BiaPyX / BiaPy
  Open source Python library for building bioimage analysis pipelines
  ☆136Updated this week
• qupath / qupath
  QuPath - Open-source bioimage analysis for research
  ☆1,112Updated this week
• royerlab / ultrack
  Cell tracking and segmentation software
  ☆103Updated this week
• instanseg / instanseg
  ☆139Updated 2 weeks ago
• DigitalSlideArchive / HistomicsTK
  A Python toolkit for pathology image analysis algorithms.
  ☆408Updated last week