Open Microscopy Environment

apacheds-docker

Dockerfile to build an ApacheDS container providing an LDAP and optionally a Kerberos service.

bio-formats-examples

Examples of usage of the Bio-Formats API

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.

napari-ome-zarr

A napari plugin for zarr backed OME-NGFF images

ngff

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

ome-zarr-py

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

omero-deployment-examples

Examples playbooks for installing OMERO with Ansible and Docker

omero-figure

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

omero-insight

Gradle project containing insight java client for OMERO

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.

ome/devspace

Continuous integration tool for OME projects

ome/ome-model

OME model (specification, code generator, implementation)

ome/ansible-role-nginx-proxy

Install Nginx for use as a front-end proxy.

ome/omero-guide-python

ome/ansible-role-minio-s3-gateway

Minio S3 gateway with additional restricted users

ome/ansible-role-omero-server

Installs and configures OMERO.server

ome/EMBL-EBI-imaging-course-04-2024

ome/ome-codecs

OME image compression (coder-decoder implementations)

ome/ome-mdbtools

Java API to handle Microsoft MDB format (Access). Used by Bio-Formats for Zeiss LSM metadata in MDB files.

ome/omero-guide-cellprofiler

ome/omero-install

OMERO installation scripts

ome/homebrew-alt

Alternate formulae repos for Homebrew

ome/omero-test-infra

Test infrastructure for decoupled repositories

ome/.github

Community health files for the @OME organization

ome/ansible-role-selinux-utils

Install utilities for interactions with SELinux

ome/conda-bftools

Bio-Formats command line tools

ome/cookiecutter-omero-cli-plugin

Cookiecutter for OMERO.cli plugins

ome/cookiecutter-omero-webapp

Cookiecutter to create OMERO.web apps

ome/ome-metakit

Library for reading Metakit database files

ome/omeroweb-install

ome/ansible-role-anonymous-ftp

Anonymous FTP uploads with Docker

ome/bio-formats-octave-docker

Bio-Formats Octave container based on openmicroscopy/octave

ome/omero-dropbox

OMERO.dropbox server for watching directories

ome/action-ansible-molecule-list-scenarios

ome/action-gradle

ome/action-workflows

ome/ome-jai

OME Java ImageIO fork (deprecated)

ome/ome-poi

OME fork of Apache Jakarta POI

ome/ome-stubs

Stubs for optional third-party components

ome/presentations

HTML-based presentations from the OME team.