Alternatives and similar repositories for cellprofiler-docker

Users that are interested in cellprofiler-docker are comparing it to the libraries listed below

• hinderling / napari_pixel_classifier
  An Ilastik-like interactive pixel classifier.
  ☆16Updated last year
• biovoxxel / bv3dbox
  The known BioVoxxel Toolbox functions now improved for 2D and 3D images
  ☆19Updated 2 months ago
• piximi / piximi_old
  a free, open-source web app for annotating, training, and evaluating image understanding algorithms
  ☆25Updated 4 years ago
• PRNicovich / 3D-Printed-Optics-Lab-Parts
  Various parts made for fluorescence microscopy + optics work
  ☆16Updated 6 years ago
• DanuserLab / u-shape3D
  Detect morphological motifs, such as blebs, filopodia, and lamellipodia, from 3D images of surfaces, particularly images of cell surfaces…
  ☆31Updated 2 weeks ago
• tlambert03 / imarispy
  Python package for writing 5D numpy arrays to HDF5 files readable by both Imaris and BigDataViewer
  ☆12Updated 4 years ago
• lewlin / a-large-image-tiler
  (Python3, PyQt5) GUI software to tile large images. Designed to image 96-well plates used in wet labs.
  ☆12Updated 7 years ago
• CellProfiler / notebooks
  Jupyter notebooks for CellProfiler and friends
  ☆14Updated 7 years ago
• aafkegros / Blender_for_Biologists_2023
  ☆39Updated last year
• mobie / mobie-viewer-fiji
  ☆41Updated last week
• ilastik / ilastik-napari
  ilastik plugin for napari
  ☆14Updated last month
• flevet / SR-Tesseler
  ☆13Updated 5 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…
  ☆34Updated 4 months ago
• yapic / yapic
  Yet Another Pixel Classifier (based on deep learning)
  ☆36Updated last year
• hanjinliu / magic-class
  Generate multifunctional and macro recordable GUIs from Python classes
  ☆45Updated 2 months ago
• jluethi / napari-feature-visualization
  Visualizing feature measurements on label images in napari
  ☆10Updated last year
• haesleinhuepf / bia-bob
  BIA Bob is a Jupyter+LLM-based assistant for interacting with image data and for working on Bio-image Analysis tasks.
  ☆130Updated 6 months ago
• cytomining / copairs
  Find profile pairs and compute retrieval metrics between them.
  ☆21Updated last week
• jni / affinder
  Quickly find the affine matrix mapping one image to another using manual correspondence points annotation
  ☆22Updated 6 months ago
• haesleinhuepf / napari-cupy-image-processing
  ☆22Updated 2 years ago
• hanjinliu / impy
  Speed up coding/extending image analysis in Python.
  ☆37Updated 2 weeks ago
• kwolbachia / Visualization_toolset
  Imagej toolset to ease hyperstacks visualization and handling
  ☆23Updated last year
• chanzuckerberg / napari-hub
  Discover, install, and share napari plugins
  ☆54Updated last week
• alxndrkalinin / cubic
  CUDA-accelerated 3D BioImage Computing (ICCV BIC 2025)
  ☆27Updated 2 weeks ago
• TheJacksonLaboratory / ezomero
  A module with convenience functions for writing Python code that interacts with OMERO.
  ☆46Updated 2 months ago
• COBA-NIH / MicroscopyForBeginnersReferenceGuide
  A Beginner's guide to microscopy, from sample prep to acquisition, image analysis, and data interpretation
  ☆29Updated 2 months ago
• CSBDeep / CSBDeep_fiji
  ☆13Updated 5 years ago
• kreshuklab / go-nuclear
  Guides and code for 3D nuclear instance segmentation
  ☆22Updated 2 months ago
• psteinb / b3get
  a python module to download Broad Bioimage Benchmark Collection images
  ☆24Updated 6 years ago
• guiwitz / Fundamentals_image_processing
  Course material for fundamentals in digital image processing
  ☆23Updated 6 years ago