Alternatives and similar repositories for bioformats:

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

• ome / openmicroscopy
  OME (Open Microscopy Environment) develops open-source software and data format standards for the storage and manipulation of biological …
  ☆204Updated 2 months ago
• CellProfiler / python-bioformats
  Read and write life sciences file formats
  ☆136Updated 5 months ago
• ilastik / ilastik
  ilastik-shell, applets, and workflows to string them together.
  ☆354Updated last week
• petebankhead / qupath
  QuPath - Open-source bioimage analysis for research
  ☆49Updated this week
• AllenCellModeling / aicsimageio
  Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
  ☆209Updated last month
• CellProfiler / CellProfiler-Analyst
  Open-source software for exploring and analyzing large, high-dimensional image-derived data.
  ☆150Updated 6 months ago
• mstritt / orbit-image-analysis
  A versatile image analysis software for biological image-based quantification using machine learning, especially for whole slide imaging.
  ☆60Updated 3 years ago
• zeiss-microscopy / libCZI
  Open Source Cross-Platform C++ library to read CZI image files
  ☆72Updated 2 years ago
• openslide / openslide
  C library for reading virtual slide images
  ☆420Updated last month
• glencoesoftware / bioformats2raw
  Bio-Formats image file format to raw format converter
  ☆85Updated last week
• imagej / tutorials
  ImageJ2 programming examples
  ☆184Updated last year
• BiaPyX / BiaPy
  Open source Python library for building bioimage analysis pipelines
  ☆136Updated this week
• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆145Updated this week
• Bayer-Group / paquo
  PAthological QUpath Obsession - QuPath and Python conversations
  ☆112Updated 2 months ago
• BIOP / qupath-extension-cellpose
  an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.
  ☆67Updated 5 months ago
• deepimagej / deepimagej-plugin
  The ImageJ plugin to run deep-learning models
  ☆90Updated this week
• labsyspharm / ashlar
  ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
  ☆135Updated 2 months ago
• vanvalenlab / deepcell-tf
  Deep Learning Library for Single Cell Analysis
  ☆436Updated 5 months ago
• stardist / stardist-imagej
  StarDist plugin for ImageJ
  ☆27Updated 2 years ago
• ome / ngff
  Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
  ☆127Updated 2 weeks ago
• choosehappy / HistoQC
  HistoQC is an open-source quality control tool for digital pathology slides
  ☆280Updated 2 months ago
• DigitalSlideArchive / digital_slide_archive
  The official deployment of the Digital Slide Archive and HistomicsTK.
  ☆112Updated last week
• hadim / read-roi
  Read ROI files .zip or .roi generated with ImageJ.
  ☆51Updated 2 years ago
• DigitalSlideArchive / HistomicsTK
  A Python toolkit for pathology image analysis algorithms.
  ☆408Updated last week
• fiji / fiji.github.io
  Fiji website
  ☆36Updated last year
• CellProfiler / tutorials
  CellProfiler tutorial pipelines and images
  ☆89Updated 3 months ago
• bioimagebook / bioimagebook.github.io
  An introduction to bioimage analysis - http://bioimagebook.github.io
  ☆65Updated 6 months ago
• clEsperanto / pyclesperanto_prototype
  GPU-accelerated bio-image analysis focusing on 3D+t microscopy image data
  ☆217Updated 4 months ago
• PreibischLab / BigStitcher
  ImgLib2/BDV implementation of Stitching for large datasets
  ☆69Updated last week
• trackmate-sc / TrackMate
  TrackMate is your buddy for your everyday tracking.
  ☆179Updated this week