Repositories list

• upptime

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

  uptime-monitorstatus-pageupptime

  Markdown

  •

  MIT License

  •1•1•3•1•Updated Mar 8, 2025Mar 8, 2025

• bio-formats-build

  Public
  Bio-Formats top-level build for all components

  buildbio-formatsmeta-repo

  Shell

  •10•0•1•5•Updated Mar 7, 2025Mar 7, 2025

• bio-formats-documentation

  Public
  Bio-Formats documentation

  documentationbio-formats

  Java

  •

  BSD 2-Clause "Simplified" License

  •17•8•1•2•Updated Mar 7, 2025Mar 7, 2025

• omero-web-docker

  Public
  OMERO.web production docker image

  omeroomeopenmicroscopy+ 2omero-webdocker

  Makefile

  •

  BSD 2-Clause "Simplified" License

  •20•6•12•8•Updated Mar 7, 2025Mar 7, 2025

• omero-web

  Public
  Django-based OMERO.web client

  pythonclientdjango+ 2webomero

  Python

  •31•17•127•12•Updated Mar 7, 2025Mar 7, 2025

• omero-documentation

  Public
  Sphinx-based documentation for the Open Microscopy Environment

  documentationomeroome

  Python

  •

  BSD 2-Clause "Simplified" License

  •51•22•27•6•Updated Mar 7, 2025Mar 7, 2025

• www.openmicroscopy.org

  Public
  OME main website

  jekyll-siteome

  HTML

  •

  Creative Commons Attribution 4.0 International

  •21•5•11•3•Updated Mar 7, 2025Mar 7, 2025

• omero-python-superbuild

  Public
  OMERO build for Python server components

  pythonbuildomero+ 1meta-repo

  4•0•1•1•Updated Mar 6, 2025Mar 6, 2025

• conda-bftools

  Public
  Bio-Formats command line tools

  Batchfile

  •4•2•1•1•Updated Mar 6, 2025Mar 6, 2025

• ome-model

  Public
  OME model (specification, code generator, implementation)

  imageschemadata-model+ 3specificationcode-generationome-model

  XSLT

  •

  Other

  •28•14•10•0•Updated Mar 5, 2025Mar 5, 2025

• ome-common-java

  Public
  Java library providing common functionality for all OME Java components

  Java

  •

  Other

  •19•2•0•1•Updated Mar 5, 2025Mar 5, 2025

• ome-contributing

  Public
  5•1•0•3•Updated Mar 5, 2025Mar 5, 2025

• omero-install

  Public
  OMERO installation scripts

  installtoolome+ 1omero

  Shell

  •24•4•7•0•Updated Mar 5, 2025Mar 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 Mar 5, 2025Mar 5, 2025

• bio-formats-examples

  Public
  Examples of usage of the Bio-Formats API

  apimavenexamples+ 2gradlebio-formats

  Java

  •

  Other

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

  •247•389•198•10•Updated Mar 5, 2025Mar 5, 2025

• omeroweb-install

  Public
  Jinja

  •10•2•4•2•Updated Mar 5, 2025Mar 5, 2025

• meeting-minutes

  Public
  Minutes from the weekly OME community meetings

  Creative Commons Attribution 4.0 International

  •6•0•1•0•Updated Mar 5, 2025Mar 5, 2025

• bioimage-latency-benchmark

  Public
  Jupyter Notebook

  •

  Other

  •10•7•6•4•Updated Mar 3, 2025Mar 3, 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

  •56•179•56•27•Updated Mar 3, 2025Mar 3, 2025

• omero-cli-zarr

  Public
  omerozarrngff+ 1ome-zarr-converter

  Python

  •

  GNU General Public License v2.0

  •10•16•17•6•Updated Mar 3, 2025Mar 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

  •21•32•23•7•Updated Mar 3, 2025Mar 3, 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 Mar 3, 2025Mar 3, 2025

• ome_zarr_test_suite

  Public
  Test suite of reader and writer implementations

  Python

  •6•4•3•3•Updated Mar 3, 2025Mar 3, 2025

• ome2024-ngff-challenge

  Public
  Project planning and material repository for the 2024 challenge to generate 1 PB of OME-Zarr data

  ome-ngffome-zarr-converter

  Python

  •

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

  •14•19•8•4•Updated Mar 3, 2025Mar 3, 2025

• ngff

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

  data-sciencecloudspec+ 2bioimagingfile-formats

  Bikeshed

  •

  Other

  •45•127•93•16•Updated Feb 26, 2025Feb 26, 2025

• omero-iviewer

  Public
  An OMERO.web app allowing to view images

  webappomero

  JavaScript

  •

  Other

  •30•19•57•9•Updated Feb 19, 2025Feb 19, 2025

• omero-rois

  Public
  OMERO python ROI utils

  pythonomero

  Python

  •

  GNU General Public License v2.0

  •5•2•2•2•Updated Feb 17, 2025Feb 17, 2025

• omero-cli-server

  Public
  CLI plugin for managing an OMERO.server

  Python

  •

  GNU General Public License v2.0

  •3•1•0•3•Updated Feb 17, 2025Feb 17, 2025

• omero-ms-zarr

  Public
  Experimental micro-service for implementing the Zarr spec over HTTP

  microserviceioomero+ 1zarr

  Java

  •

  GNU General Public License v2.0

  •12•18•17•1•Updated Feb 17, 2025Feb 17, 2025