Alternatives and similar repositories for cytomining-hackathon-wiki

Users that are interested in cytomining-hackathon-wiki are comparing it to the libraries listed below

• CellProfiler / CellProfiler-plugins
  Community-contributed and experimental CellProfiler modules.
  ☆69Updated last week
• 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 Slightly outdated but still much liked by learners.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
• Immunodynamics-Engel-Lab / msiflow
  collection of mass spectrometry imaging workflows
  ☆17Updated 4 months ago
• CellProfiler / tutorials
  CellProfiler tutorial pipelines and images
  ☆98Updated 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…
  ☆135Updated 5 years ago
• PreibischLab / RS-FISH
  Tool for precise, interactive, fast and scalable FISH spot detection
  ☆50Updated 8 months ago
• AllenInstitute / aics-segmentation
  AICS Segmentation (One-Way) Mirror
  ☆45Updated 4 years ago
• guiwitz / neubias_academy_biapy
  NEUBIAS Academy @Home: Interactive Bioimage Analysis with Python and Jupyter
  ☆63Updated 2 years ago
• BIOP / ijl-utilities-wrappers
  Wrappers for external software calls (Cellpose, Elastix, Ilastix...) and java utilities (object conversions and display)
  ☆39Updated 5 months ago
• cytomining / copairs
  Find profile pairs and compute metrics between them.
  ☆20Updated this week
• ksugar / qupath-extension-cellsparse
  QuPath extension for Cellsparse
  ☆19Updated 5 months ago
• AllenCell / aics-ml-segmentation
  ☆32Updated 2 months ago
• CellMigrationLab / CellTracksColab
  A platform for compiling, analyzing, and exploring tracking data
  ☆47Updated 2 months ago
• lowe-lab-ucl / arboretum
  Track and lineage visualization with btrack and Napari
  ☆46Updated last month
• DanuserLab / u-shape3D
  Detect morphological motifs, such as blebs, filopodia, and lamellipodia, from 3D images of surfaces, particularly images of cell surfaces…
  ☆29Updated 6 months ago
• JaneliaSciComp / multifish
  EASI-FISH analysis pipeline for spatial transcriptomics
  ☆35Updated 11 months ago
• ciccalab / SIMPLI
  SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.
  ☆38Updated last month
• vanvalenlab / deepcell-label
  Cloud-based data annotation tools for biological images
  ☆82Updated last year
• labsyspharm / mcmicro
  Multiple-choice microscopy pipeline
  ☆135Updated 3 weeks ago
• kukionfr / VAMPIRE_open
  open source version of VAMPIRE analysis : visually-aided morpho-phenotyping recognition
  ☆31Updated 3 years ago
• fish-quant / big-fish
  Toolbox for the analysis of smFISH images.
  ☆68Updated last year
• NEUBIAS / neubias-springer-book-2021
  The repository of NEUBIAS textbook 2021
  ☆11Updated 3 years ago
• haesleinhuepf / BioImageAnalysisNotebooks
  Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more
  ☆149Updated 3 weeks ago
• peng-lab / BaSiCPy
  ☆85Updated 7 months ago
• labsyspharm / ashlar
  ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
  ☆152Updated 2 months ago
• uhlmanngroup / splinedist
  SplineDist: Automated Cell Segmentation with Spline Curves
  ☆69Updated last year
• VasylVaskivskyi / microaligner
  Image registration (alignment) software for large microscopy images
  ☆25Updated 2 years ago
• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆182Updated this week
• TheJacksonLaboratory / ezomero
  A module with convenience functions for writing Python code that interacts with OMERO.
  ☆45Updated this week
• stardist / stardist-imagej
  StarDist plugin for ImageJ
  ☆30Updated 3 years ago