Repositories list

• training-docker

  Public
  Software carpentry lesson about Docker

  trainingdockersoftware-carpentry

  Python

  •

  Other

  •4•4•0•0•Updated Jun 14, 2025Jun 14, 2025

• ome-resources-monitor

  Public
  BSD 2-Clause "Simplified" License

  •2•0•1•0•Updated Jun 14, 2025Jun 14, 2025

• upptime

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

  uptime-monitorstatus-pageupptime

  Markdown

  •

  MIT License

  •1•1•1•1•Updated Jun 14, 2025Jun 14, 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•210•25•9•Updated Jun 14, 2025Jun 14, 2025

• www.openmicroscopy.org

  Public
  OME main website

  jekyll-siteome

  HTML

  •

  Creative Commons Attribution 4.0 International

  •22•5•12•2•Updated Jun 13, 2025Jun 13, 2025

• presentations

  Public
  HTML-based presentations from the OME team.

  reveal-jspresentationshtml

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •19•0•0•0•Updated Jun 13, 2025Jun 13, 2025

• omero-py

  Public
  Python project containing Ice remoting code for OMERO

  pythoncomponentlib+ 2omeroomero-py

  Python

  •

  GNU General Public License v2.0

  •35•24•53•9•Updated Jun 13, 2025Jun 13, 2025

• training-scripts

  Public
  A set of scripts to access, analyse image and metadata from OMERO

  Python

  •15•8•4•7•Updated Jun 12, 2025Jun 12, 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

  •249•399•184•12•Updated Jun 12, 2025Jun 12, 2025

• omero-build

  Public
  OMERO top-level build for all components

  buildomerometa-repo

  Dockerfile

  •7•1•3•3•Updated Jun 11, 2025Jun 11, 2025

• omero-gateway-java

  Public
  Gradle project containing OMERO Java Client Library

  javaapibuild+ 5sdkcomponentgradlejaromero

  Java

  •

  GNU General Public License v2.0

  •10•1•16•3•Updated Jun 11, 2025Jun 11, 2025

• omero-blitz

  Public
  Gradle project containing Ice remoting code for OMERO

  componentserverjar+ 2libomero

  Java

  •

  GNU General Public License v2.0

  •15•0•30•3•Updated Jun 11, 2025Jun 11, 2025

• meeting-minutes

  Public
  Minutes from the weekly OME community meetings

  Creative Commons Attribution 4.0 International

  •6•0•1•0•Updated Jun 11, 2025Jun 11, 2025

• devspace

  Public
  Continuous integration tool for OME projects

  dockercontinuous-integrationdevs+ 2jenkinsomero

  Shell

  •18•18•21•2•Updated Jun 11, 2025Jun 11, 2025

• docker-example-omero

  Public
  OMERO Docker compose example

  dockerdeploymentomero+ 2omero-serveromero-web

  Shell

  •

  BSD 2-Clause "Simplified" License

  •29•26•4•0•Updated Jun 11, 2025Jun 11, 2025

• omero-server

  Public
  Gradle project containing main server logic for OMERO

  componentserverjar+ 2libomero

  Java

  •

  GNU General Public License v2.0

  •14•6•36•4•Updated Jun 10, 2025Jun 10, 2025

• ome-zarr-py

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

  omezarrngff+ 1ome-zarr

  Python

  •

  Other

  •60•196•63•14•Updated Jun 9, 2025Jun 9, 2025

• omero-cli-zarr

  Public
  omerozarrngff+ 1ome-zarr-converter

  Python

  •

  GNU General Public License v2.0

  •10•17•17•10•Updated Jun 6, 2025Jun 6, 2025

• omero-cli-transfer

  Public
  An OMERO CLI plugin for creating transfer packets between OMERO servers.

  omeroomero-serveromero-import

  Python

  •

  GNU General Public License v2.0

  •16•17•5•0•Updated Jun 4, 2025Jun 4, 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 Jun 4, 2025Jun 4, 2025

• omero_search_engine

  Public
  App which is used to search metadata (key-value pairs)

  Python

  •

  GNU General Public License v2.0

  •4•1•15•9•Updated Jun 4, 2025Jun 4, 2025

• ome-contributing

  Public
  5•1•0•2•Updated Jun 4, 2025Jun 4, 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 Jun 4, 2025Jun 4, 2025

• omero-common

  Public
  Gradle project containing common utilities for OMERO

  libraryutilomero

  Java

  •

  GNU General Public License v2.0

  •11•1•1•4•Updated Jun 4, 2025Jun 4, 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 Jun 3, 2025Jun 3, 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

  •22•33•24•8•Updated Jun 2, 2025Jun 2, 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 Jun 2, 2025Jun 2, 2025

• ome_zarr_test_suite

  Public
  Test suite of reader and writer implementations

  Python

  •6•4•3•3•Updated Jun 2, 2025Jun 2, 2025

• omero-python-superbuild

  Public
  OMERO build for Python server components

  pythonbuildomero+ 1meta-repo

  4•0•1•2•Updated Jun 2, 2025Jun 2, 2025

• bio-formats-documentation

  Public
  Bio-Formats documentation

  documentationbio-formats

  Java

  •

  BSD 2-Clause "Simplified" License

  •19•8•1•2•Updated May 28, 2025May 28, 2025