Open Microscopy Environment

bioformats

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.

openmicroscopy

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 by private and public research grants, OME has been a major force on the international microscopy stage since 2000.

ngff

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

napari-ome-zarr

A napari plugin for zarr backed OME-NGFF images

omero-documentation

Sphinx-based documentation for the Open Microscopy Environment

omero-py

Python project containing Ice remoting code for OMERO

omero-iviewer

An OMERO.web app allowing to view images

omero-web

Django-based OMERO.web client

omero-figure

An OMERO.web app for creating Figures from images in OMERO

bio-formats-examples

Examples of usage of the Bio-Formats API

omero-cli-transfer

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

ome2024-ngff-challenge

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

bio-formats-documentation

Bio-Formats documentation

omero-insight

Gradle project containing insight java client for OMERO

omero-web-docker

OMERO.web production docker image

www.openmicroscopy.org

OME main website

ome_zarr_test_suite

Test suite of reader and writer implementations

ome-common-java

Java library providing common functionality for all OME Java components

bio-formats-build

Bio-Formats top-level build for all components

ome-contributing

omero-build

OMERO top-level build for all components

omero-demo-cleanup

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

omero-gateway-java

Gradle project containing OMERO Java Client Library

omero-plugins

Collection of OMERO extensions (plugins, apps)

upptime

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

ansible-role-analysis-tools

Useful tools for running high-throughput analyses.

ansible-role-omero-ms-image-region

meeting-minutes

Minutes from the weekly OME community meetings

omero-docs-superbuild

OMERO build for doc components

omero-python-superbuild

OMERO build for Python server components