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 …
  ☆215Updated this week
• glencoesoftware / bioformats2raw
  Bio-Formats image file format to raw format converter
  ☆103Updated last month
• CellProfiler / python-bioformats
  Read and write life sciences file formats
  ☆142Updated 7 months ago
• imagej / tutorials
  ImageJ2 programming examples
  ☆194Updated 2 years ago
• petebankhead / qupath
  QuPath - Open-source bioimage analysis for research
  ☆50Updated this week
• mstritt / orbit-image-analysis
  A versatile image analysis software for biological image-based quantification using machine learning, especially for whole slide imaging.
  ☆59Updated 4 years ago
• AllenCellModeling / aicsimageio
  Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
  ☆221Updated 2 months ago
• ilastik / ilastik
  ilastik-shell, applets, and workflows to string them together.
  ☆388Updated this week
• zeiss-microscopy / libCZI
  Open Source Cross-Platform C++ library to read CZI image files
  ☆72Updated 3 years ago
• imagej / imagej.github.io
  The ImageJ wiki
  ☆28Updated last week
• deepimagej / deepimagej-plugin
  The ImageJ plugin to run deep-learning models
  ☆97Updated 3 months ago
• bioimagebook / bioimagebook.github.io
  An introduction to bioimage analysis - http://bioimagebook.github.io
  ☆76Updated 5 months ago
• cgohlke / roifile
  Read and write ImageJ ROI format.
  ☆84Updated last week
• saalfeldlab / paintera
  ☆112Updated last week
• BiaPyX / BiaPy
  Open source Python library for building bioimage analysis pipelines
  ☆188Updated last week
• ome / ome-zarr-py
  Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
  ☆222Updated last week
• labsyspharm / ashlar
  ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
  ☆162Updated this week
• zeiss-microscopy / OAD
  Collection of tools and scripts useful to automate microscopy workflows in ZEN Blue using Python and Open Application Development tools a…
  ☆159Updated 2 weeks ago
• stardist / stardist-imagej
  StarDist plugin for ImageJ
  ☆30Updated 3 years ago
• CRBS / cdeep3m
  Please go to https://github.com/CRBS/cdeep3m2 for most recent version
  ☆59Updated 6 years ago
• JaneliaSciComp / BigStitcher
  ImgLib2/BDV implementation of Stitching for large datasets
  ☆78Updated 3 months ago
• CellProfiler / CellProfiler-Analyst
  Open-source software for exploring and analyzing large, high-dimensional image-derived data.
  ☆166Updated 6 months ago
• hadim / read-roi
  Read ROI files .zip or .roi generated with ImageJ.
  ☆53Updated 3 years ago
• openslide / openslide
  C library for reading virtual slide images
  ☆471Updated 2 months ago
• segment-anything-models-java / SAMJ-IJ
  An ImageJ/Fiji plugin designed to effortlessly integrate Segment-Anything models (SAMs) without code.
  ☆84Updated 2 months ago
• Bayer-Group / paquo
  PAthological QUpath Obsession - QuPath and Python conversations
  ☆133Updated 5 months ago
• DigitalSlideArchive / digital_slide_archive
  The official deployment of the Digital Slide Archive and HistomicsTK.
  ☆133Updated last week
• guiwitz / neubias_academy_biapy
  NEUBIAS Academy @Home: Interactive Bioimage Analysis with Python and Jupyter
  ☆64Updated 2 years ago
• ome / ngff
  Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
  ☆152Updated last week
• SchmollerLab / Cell_ACDC
  A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
  ☆192Updated last week