Open Microscopy Environment
Software and data format standards for management of microscopy image data. Joint project between international private and public research
Pinned Repositories
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.
Open Microscopy Environment's Repositories
ome/ansible-role-nfs-mount
Manage NFS4 mounts
ome/omero-deployment-examples
Examples playbooks for installing OMERO with Ansible and Docker
ome/EMBO-Practical-Course-2023
Advanced methods in bioimage analysis
ome/ansible-role-postgresql-backup
Backup PostgreSQL database servers
ome/omero-mapr
An OMERO.web app allowing to browse the data through attributes linked to the image
ome/rOMERO-gateway
OMERO R Gateway
ome/ansible-role-iptables-raw
Ansible module to import iptables_raw library
ome/omero-downloader
An OMERO client for downloading data in bulk from the server.
ome/prod-playbooks
Playbooks used by the OME team for deploying production services including OMERO
ome/ansible-role-python3-virtualenv
Install Python3 virtualenv dependencies and a wrapper script for the Ansible pip module
ome/ansible-role-logrotate
Customise log-rotation.
ome/omero-web-zarr
Implementation of OME-Zarr API with an omero-web app
ome/omeroweb-install
ome/ansible-example-omero-onenode
Example of deploying an OMERO.server on a single-node
ome/ansible-role-lvm-partition
ome/ansible-role-rsync-server
Ansible role for a rsync server
ome/omero-gateway-java
Gradle project containing OMERO Java Client Library
ome/omero-parade
OMERO.web plugin for displaying Dataset thumbnails or Plates in webclient center panel
ome/omero-signup
OMERO.web app to allow anyone to signup for an OMERO account
ome/omero-web-apps-examples
Example Setup for Web Apps
ome/action-ansible-galaxy-publish
A GitHub action to push an Ansible role to Ansible Galaxy
ome/ansible-role-java
Install Java JREs and optionally JDKs.
ome/ansible-role-nfs-share
Manage NFS file shares (no authentication).
ome/ansible-role-omero-user
Create OMERO user accounts and groups
ome/ansible-role-versioncontrol-utils
Install version control utilities
ome/build-infra
Infrastructure for super-project builds
ome/jenkins-library-recursivemerge
Shared library for recursive merging in Jenkinsfiles
ome/omero-renderer
Gradle project containing rendering functionality for OMERO
ome/omero-romio
Gradle project for the ROMIO library of OMERO
ome/zeroc-ice-py-github-ci
Builds Zeroc Ice wheel Python 3.x packages for GitHub CI