Repositories list

• upptime

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

  uptime-monitorstatus-pageupptime

  Markdown

  •

  MIT License

  •1•1•0•0•Updated Nov 10, 2024Nov 10, 2024

• bio-formats-build

  Public
  Bio-Formats top-level build for all components

  buildbio-formatsmeta-repo

  Shell

  •10•0•1•3•Updated Nov 8, 2024Nov 8, 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

  •241•381•198•11•Updated Nov 8, 2024Nov 8, 2024

• omero-plugins

  Public
  Collection of OMERO extensions (plugins, apps)

  ecosystembuildplugins+ 2omerometa-repo

  7•0•1•1•Updated Nov 8, 2024Nov 8, 2024

• omero-mapr

  Public
  An OMERO.web app allowing to browse the data through attributes linked to the image

  pluginimageviewer+ 1omero

  Python

  •

  GNU Affero General Public License v3.0

  •13•5•17•3•Updated Nov 7, 2024Nov 7, 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•152•59•13•Updated Nov 7, 2024Nov 7, 2024

• omero-guides

  Public
  Guides for using OMERO

  docshelpomero+ 3guidesmanualsomero-training

  Python

  •

  BSD 2-Clause "Simplified" License

  •5•1•15•1•Updated Nov 5, 2024Nov 5, 2024

• omero-guide-ilastik

  Public
  Jupyter Notebook

  •

  BSD 2-Clause "Simplified" License

  •5•5•3•0•Updated Nov 5, 2024Nov 5, 2024

• omero-docs-superbuild

  Public
  OMERO build for doc components

  docsbuildomero+ 1meta-repo

  1•0•0•2•Updated Nov 5, 2024Nov 5, 2024

• omero-documentation

  Public
  Sphinx-based documentation for the Open Microscopy Environment

  documentationomeroome

  Python

  •

  BSD 2-Clause "Simplified" License

  •51•22•27•10•Updated Nov 5, 2024Nov 5, 2024

• bio-formats-documentation

  Public
  Bio-Formats documentation

  documentationbio-formats

  Java

  •

  BSD 2-Clause "Simplified" License

  •17•8•1•1•Updated Nov 4, 2024Nov 4, 2024

• omero-install

  Public
  OMERO installation scripts

  installtoolome+ 1omero

  Shell

  •24•4•6•2•Updated Nov 4, 2024Nov 4, 2024

• omero-python-superbuild

  Public
  OMERO build for Python server components

  pythonbuildomero+ 1meta-repo

  4•0•1•2•Updated Nov 4, 2024Nov 4, 2024

• omero-web

  Public
  Django-based OMERO.web client

  pythonclientdjango+ 2webomero

  Python

  •31•17•128•11•Updated Nov 1, 2024Nov 1, 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

  •102•200•25•11•Updated Nov 1, 2024Nov 1, 2024

• action-workflows

  Public
  2•0•0•0•Updated Oct 31, 2024Oct 31, 2024

• presentations

  Public
  HTML-based presentations from the OME team.

  reveal-jspresentationshtml

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •19•0•0•0•Updated Oct 30, 2024Oct 30, 2024

• omero-metadata

  Public
  OMERO plugin for metadata manipulation https://www.openmicroscopy.org/omero/

  climetadataomero

  Python

  •

  GNU General Public License v2.0

  •13•7•20•3•Updated Oct 30, 2024Oct 30, 2024

• conda-raw2ometiff

  Public
  Raw format to OME-TIFF converter

  Batchfile

  •3•0•0•0•Updated Oct 30, 2024Oct 30, 2024

• conda-bioformats2raw

  Public
  Bio-Formats image file format to raw format converter

  Batchfile

  •5•6•2•0•Updated Oct 30, 2024Oct 30, 2024

• conda-bftools

  Public
  Bio-Formats command line tools

  Batchfile

  •4•2•1•0•Updated Oct 30, 2024Oct 30, 2024

• omero-cli-zarr

  Public
  omerozarrngff+ 1ome-zarr-converter

  Python

  •

  GNU General Public License v2.0

  •10•16•17•4•Updated Oct 28, 2024Oct 28, 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•28•22•7•Updated Oct 28, 2024Oct 28, 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 Oct 28, 2024Oct 28, 2024

• bioimage-latency-benchmark

  Public
  Jupyter Notebook

  •

  Other

  •10•8•6•4•Updated Oct 28, 2024Oct 28, 2024

• ome_zarr_test_suite

  Public
  Test suite of reader and writer implementations

  Python

  •6•4•3•3•Updated Oct 28, 2024Oct 28, 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

  •13•13•7•3•Updated Oct 28, 2024Oct 28, 2024

• ome-ngff-validator

  Public
  Web page for validating OME-NGFF files

  ome-zarr

  Svelte

  •

  BSD 2-Clause "Simplified" License

  •4•5•4•0•Updated Oct 28, 2024Oct 28, 2024

• ngff

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

  data-sciencecloudspec+ 2bioimagingfile-formats

  Bikeshed

  •

  Other

  •38•117•90•18•Updated Oct 25, 2024Oct 25, 2024

• omero-model

  Public
  Gradle project for generating model jar for OMERO

  librarycomponentgradle+ 3modeljaromero

  Java

  •

  GNU General Public License v2.0

  •13•0•9•3•Updated Oct 24, 2024Oct 24, 2024