Repositories list

• ome-zarr-py

  Public
  Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.

  omezarrngff+ 1ome-zarr

  Python

  •

  Other

  •63•202•68•15•Updated Aug 20, 2025Aug 20, 2025

• bioformats

  Public
  Bio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment. Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.

  javametadataimage+ 7format-readerformat-converterwhole-slide-imagingwsilightsheetbio-formatslife-sciences-image

  Java

  •

  GNU General Public License v2.0

  •248•401•174•8•Updated Aug 20, 2025Aug 20, 2025

• ome-resources-monitor

  Public
  BSD 2-Clause "Simplified" License

  •2•0•1•0•Updated Aug 20, 2025Aug 20, 2025

• upptime

  Public
  📈 Uptime monitor and status page for OME, powered by @upptime

  uptime-monitorstatus-pageupptime

  Markdown

  •

  MIT License

  •1•1•1•1•Updated Aug 20, 2025Aug 20, 2025

• omero-zarr-pixel-buffer

  Public
  OMERO Zarr Pixel Buffer Implementation

  Java

  •

  GNU General Public License v2.0

  •9•0•0•3•Updated Aug 20, 2025Aug 20, 2025

• bio-formats-documentation

  Public
  Bio-Formats documentation

  documentationbio-formats

  Java

  •

  BSD 2-Clause "Simplified" License

  •19•8•1•1•Updated Aug 16, 2025Aug 16, 2025

• omero-build

  Public
  OMERO top-level build for all components

  buildomerometa-repo

  Dockerfile

  •7•1•3•0•Updated Aug 15, 2025Aug 15, 2025

• www.openmicroscopy.org

  Public
  OME main website

  jekyll-siteome

  HTML

  •

  Creative Commons Attribution 4.0 International

  •23•6•13•2•Updated Aug 15, 2025Aug 15, 2025

• omero-python-superbuild

  Public
  OMERO build for Python server components

  pythonbuildomero+ 1meta-repo

  4•0•1•0•Updated Aug 14, 2025Aug 14, 2025

• omero-documentation

  Public
  Sphinx-based documentation for the Open Microscopy Environment

  documentationomeroome

  Python

  •

  BSD 2-Clause "Simplified" License

  •51•22•30•8•Updated Aug 14, 2025Aug 14, 2025

• omero-web-docker

  Public
  OMERO.web production docker image

  omeroomeopenmicroscopy+ 2omero-webdocker

  Makefile

  •

  BSD 2-Clause "Simplified" License

  •20•6•12•8•Updated Aug 13, 2025Aug 13, 2025

• omero-web

  Public
  Django-based OMERO.web client

  pythonclientdjango+ 2webomero

  Python

  •33•20•131•13•Updated Aug 13, 2025Aug 13, 2025

• snoopys-sandbox

  Public archive
  Test repository for the snoopycrimecop/snoopycrimecop code.

  12•0•0•0•Updated Aug 13, 2025Aug 13, 2025

• meeting-minutes

  Public
  Minutes from the weekly OME community meetings

  Creative Commons Attribution 4.0 International

  •6•0•1•0•Updated Aug 12, 2025Aug 12, 2025

• bioimage-latency-benchmark

  Public
  Jupyter Notebook

  •

  Other

  •10•7•6•4•Updated Aug 11, 2025Aug 11, 2025

• napari-ome-zarr

  Public
  A napari plugin for zarr backed OME-NGFF images

  napari-pluginzarrngff+ 1python

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •24•33•27•8•Updated Aug 11, 2025Aug 11, 2025

• omero-cli-zarr

  Public
  omerozarrngff+ 1ome-zarr-converter

  Python

  •

  GNU General Public License v2.0

  •10•17•17•10•Updated Aug 11, 2025Aug 11, 2025

• omero-demo-cleanup

  Public
  A CLI plugin for managing the disk space on the OME demo server

  Python

  •

  GNU General Public License v2.0

  •4•2•1•2•Updated Aug 11, 2025Aug 11, 2025

• ome_zarr_test_suite

  Public
  Test suite of reader and writer implementations

  Python

  •6•4•3•3•Updated Aug 11, 2025Aug 11, 2025

• omero-web-apps-examples

  Public template
  Example Setup for Web Apps

  Python

  •4•1•2•5•Updated Aug 6, 2025Aug 6, 2025

• ngff

  Public
  Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.

  data-sciencecloudspec+ 2bioimagingfile-formats

  Python

  •

  Other

  •48•137•97•17•Updated Aug 6, 2025Aug 6, 2025

• omero-insight

  Public
  Gradle project containing insight java client for OMERO

  clientguijava+ 1omero

  Java

  •

  GNU General Public License v2.0

  •13•8•118•4•Updated Aug 6, 2025Aug 6, 2025

• omero-renderer

  Public
  Gradle project containing rendering functionality for OMERO

  componentgradlejar+ 1omero

  Java

  •

  GNU General Public License v2.0

  •10•0•2•1•Updated Aug 6, 2025Aug 6, 2025

• omero-romio

  Public
  Gradle project for the ROMIO library of OMERO

  libraryjario+ 1omero

  Java

  •

  GNU General Public License v2.0

  •13•0•3•1•Updated Aug 6, 2025Aug 6, 2025

• omero-model

  Public
  Gradle project for generating model jar for OMERO

  librarycomponentgradle+ 3modeljaromero

  Java

  •

  GNU General Public License v2.0

  •13•0•9•0•Updated Aug 6, 2025Aug 6, 2025

• ome-contributing

  Public
  6•1•0•1•Updated Aug 5, 2025Aug 5, 2025

• bio-formats-fiji

  Public
  A simple POM to update Bio-Formats on a Fiji distribution

  fijibio-formats

  Shell

  •7•0•1•1•Updated Aug 5, 2025Aug 5, 2025

• bio-formats-examples

  Public
  Examples of usage of the Bio-Formats API

  apimavenexamples+ 2gradlebio-formats

  Java

  •

  Other

  •19•13•1•0•Updated Aug 5, 2025Aug 5, 2025

• ome-common-java

  Public
  Java library providing common functionality for all OME Java components

  Java

  •

  Other

  •20•2•1•0•Updated Jul 31, 2025Jul 31, 2025

• openmicroscopy

  Public
  OME (Open Microscopy Environment) develops open-source software and data format standards for the storage and manipulation of biological light microscopy data. A joint project between universities, research establishments and industry in Europe and the USA, OME has over 20 active researchers with strong links to the microscopy community. Funded …

  pythonimagedatabase+ 3serveromerojava

  Java

  •

  GNU General Public License v2.0

  •102•213•22•6•Updated Jul 29, 2025Jul 29, 2025