Repositories list

• upptime

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

  uptime-monitorstatus-pageupptime

  Markdown

  •

  MIT License

  •1•1•3•0•Updated Dec 24, 2024Dec 24, 2024

• 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•31•23•7•Updated Dec 23, 2024Dec 23, 2024

• 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•1•1•2•Updated Dec 23, 2024Dec 23, 2024

• bioimage-latency-benchmark

  Public
  Jupyter Notebook

  •

  Other

  •10•7•6•4•Updated Dec 23, 2024Dec 23, 2024

• omero-cli-zarr

  Public
  omerozarrngff+ 1ome-zarr-converter

  Python

  •

  GNU General Public License v2.0

  •10•16•17•4•Updated Dec 23, 2024Dec 23, 2024

• ome_zarr_test_suite

  Public
  Test suite of reader and writer implementations

  Python

  •6•4•3•3•Updated Dec 23, 2024Dec 23, 2024

• ome-zarr-py

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

  omezarrngff+ 1ome-zarr

  Python

  •

  Other

  •54•165•57•12•Updated Dec 23, 2024Dec 23, 2024

• 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•16•7•3•Updated Dec 23, 2024Dec 23, 2024

• omero-plugins

  Public
  Collection of OMERO extensions (plugins, apps)

  ecosystembuildplugins+ 2omerometa-repo

  7•0•1•1•Updated Dec 23, 2024Dec 23, 2024

• bio-formats-build

  Public
  Bio-Formats top-level build for all components

  buildbio-formatsmeta-repo

  Shell

  •10•0•1•1•Updated Dec 21, 2024Dec 21, 2024

• 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

  •242•382•198•12•Updated Dec 20, 2024Dec 20, 2024

• bio-formats-documentation

  Public
  Bio-Formats documentation

  documentationbio-formats

  Java

  •

  BSD 2-Clause "Simplified" License

  •17•8•1•2•Updated Dec 20, 2024Dec 20, 2024

• ome-common-java

  Public
  Java library providing common functionality for all OME Java components

  Java

  •

  Other

  •19•2•1•1•Updated Dec 20, 2024Dec 20, 2024

• ome-metakit

  Public
  Library for reading Metakit database files

  metakit

  Java

  •

  GNU General Public License v2.0

  •7•2•0•1•Updated Dec 20, 2024Dec 20, 2024

• omero-rois

  Public
  OMERO python ROI utils

  pythonomero

  Python

  •

  GNU General Public License v2.0

  •4•2•2•1•Updated Dec 19, 2024Dec 19, 2024

• www.openmicroscopy.org

  Public
  OME main website

  jekyll-siteome

  HTML

  •

  Creative Commons Attribution 4.0 International

  •22•5•10•2•Updated Dec 18, 2024Dec 18, 2024

• omero-python-superbuild

  Public
  OMERO build for Python server components

  pythonbuildomero+ 1meta-repo

  4•0•1•1•Updated Dec 18, 2024Dec 18, 2024

• 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

  •101•202•26•6•Updated Dec 18, 2024Dec 18, 2024

• prod-playbooks

  Public
  Playbooks used by the OME team for deploying production services including OMERO

  ansibledeploymentproduction+ 2playbooksomero

  Jinja

  •

  BSD 2-Clause "Simplified" License

  •18•4•11•0•Updated Dec 17, 2024Dec 17, 2024

• omero-scripts

  Public
  Core OMERO Scripts

  scriptspythonomero

  Python

  •32•12•16•4•Updated Dec 17, 2024Dec 17, 2024

• omero-guides

  Public
  Guides for using OMERO

  docshelpomero+ 3guidesmanualsomero-training

  Python

  •

  BSD 2-Clause "Simplified" License

  •5•1•15•1•Updated Dec 17, 2024Dec 17, 2024

• ngff

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

  data-sciencecloudspec+ 2bioimagingfile-formats

  Bikeshed

  •

  Other

  •42•123•91•19•Updated Dec 17, 2024Dec 17, 2024

• omero-cli-server

  Public
  CLI plugin for managing an OMERO.server

  Python

  •

  GNU General Public License v2.0

  •3•1•0•3•Updated Dec 16, 2024Dec 16, 2024

• 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

  •14•17•5•0•Updated Dec 16, 2024Dec 16, 2024

• omero-guide-scripts

  Public
  BSD 2-Clause "Simplified" License

  •3•0•0•0•Updated Dec 16, 2024Dec 16, 2024

• ome-model

  Public
  OME model (specification, code generator, implementation)

  imageschemadata-model+ 3specificationcode-generationome-model

  XSLT

  •

  Other

  •26•14•14•0•Updated Dec 16, 2024Dec 16, 2024

• omero-prometheus-tools

  Public
  Utilities for monitoring OMERO with Prometheus

  monitoringprometheusomero+ 3omeomero-serveromero-web

  Python

  •9•2•2•0•Updated Dec 16, 2024Dec 16, 2024

• omero-web-zarr

  Public
  Implementation of OME-Zarr API with an omero-web app

  Python

  •

  GNU Affero General Public License v3.0

  •3•3•3•3•Updated Dec 16, 2024Dec 16, 2024

• omero-signup

  Public
  OMERO.web app to allow anyone to signup for an OMERO account

  webappomero

  Python

  •

  GNU Affero General Public License v3.0

  •7•1•2•1•Updated Dec 14, 2024Dec 14, 2024

• omero-web

  Public
  Django-based OMERO.web client

  pythonclientdjango+ 2webomero

  Python

  •31•17•127•10•Updated Dec 14, 2024Dec 14, 2024