Projects in Awesome Lists by ome | Ecosyste.ms: Awesome

https://github.com/ome/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.

bio-formats format-converter format-reader image java life-sciences-image lightsheet metadata whole-slide-imaging wsi

Last synced: 17 Dec 2025

https://github.com/ome/ome-zarr-py

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

ngff ome ome-zarr zarr

Last synced: 14 Apr 2026

https://github.com/ome/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.

database image java omero python server

Last synced: 09 May 2025

https://github.com/ome/ngff

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

bioimaging cloud data-science file-formats spec

Last synced: 09 May 2025

https://github.com/ome/ansible-role-cadvisor

cAdvisor container monitoring

ansible cadvisor containers monitoring

Last synced: 01 Mar 2026

https://github.com/ome/omero-documentation

Sphinx-based documentation for the Open Microscopy Environment

documentation ome omero

Last synced: 16 Dec 2025

https://github.com/ome/omero-iviewer

An OMERO.web app allowing to view images

omero webapp

Last synced: 14 Jun 2025

https://github.com/ome/ome-model

OME model (specification, code generator, implementation)

code-generation data-model image ome-model schema specification

Last synced: 22 Jan 2026

https://github.com/ome/omero-web

Django-based OMERO.web client

client django omero python web

Last synced: 04 Apr 2025

https://github.com/ome/ansible-role-prometheus

Prometheus monitoring server

ansible monitoring prometheus

Last synced: 14 Jun 2025

https://github.com/ome/omero-scripts

Core OMERO Scripts

omero python scripts

Last synced: 29 Jan 2026

https://github.com/ome/octave-docker

Dockerfile to build an Octave container

docker octave

Last synced: 12 Mar 2026

https://github.com/ome/ansible-role-nginx-proxy

Install Nginx for use as a front-end proxy.

ansible nginx nginx-proxy role

Last synced: 12 Oct 2025

https://ome.github.io/ome-ngff-validator/

Web page for validating OME-NGFF files

ome-zarr

Last synced: 20 Jan 2026

https://github.com/ome/ome-docker

Docker files for http://github.com/openmicroscopy

deprecated docker

Last synced: 04 Aug 2025

https://github.com/ome/bio-formats-documentation

Bio-Formats documentation

bio-formats documentation

Last synced: 02 Sep 2025

Last synced: 30 Jun 2025

https://github.com/ome/omego

OME, Go! Installation and administration tool for OME applications.

install ome python tool

Last synced: 18 Feb 2026

https://github.com/ome/omero-server

Gradle project containing main server logic for OMERO

component jar lib omero server

Last synced: 09 Sep 2025

https://github.com/ome/ansible-role-postgresql-backup

Backup PostgreSQL database servers

ansible ansible-role backup database ome openmicroscopy postgresql

Last synced: 10 Jul 2025

https://github.com/ome/ansible-role-fluentd

Install Fluentd log collector with Ansible

ansible fluentd log-collector logging monitoring

Last synced: 01 Sep 2025

https://github.com/ome/spatial-omics-hackathon-2021

See https://forum.image.sc/t/ome-ngff-spatial-omics-hackathon/57337

Last synced: 23 Jan 2026

https://github.com/ome/ansible-role-mysql-backup

Setup a cron job for regular full Mysql/Mariadb database dumps.

ansible backup database mariadb mysql

Last synced: 15 Feb 2026

https://github.com/ome/ansible-role-iptables-raw

Ansible module to import iptables_raw library

ansible ansible-role firewall iptables ome openmicroscopy

Last synced: 29 Sep 2025

https://github.com/ome/ansible-role-omero-server

Installs and configures OMERO.server

ansible omero role server

Last synced: 14 Jun 2025

https://github.com/ome/omero-install

OMERO installation scripts

install ome omero tool

Last synced: 02 Aug 2025

https://github.com/ome/omero-marshal

OMERO marshalling infrastructure

marshalling model omero pip

Last synced: 24 Aug 2025

https://github.com/ome/ome-mdbtools

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

mdb

Last synced: 30 Jun 2025

https://github.com/ome/omero-rois

OMERO python ROI utils

omero python

Last synced: 09 Sep 2025

https://github.com/ome/ome-zarr-metadata

ome-zarr extension for parsing metadata

Last synced: 07 Sep 2025

https://github.com/ome/omero-upload

OMERO Python library for uploading files

cli omero plugin python upload

Last synced: 17 Mar 2026

https://github.com/ome/omero-biofilefinder

OMERO.web plugin for opening data in BioFile Finder

Last synced: 28 May 2026

https://github.com/ome/ansible-role-postgresql-client

Install PostgreSQL clients from the upstream distribution

ansible client postgresql role

Last synced: 04 Jul 2025

https://github.com/ome/omero-webtest

An OMERO.web app for prototypes and examples

omero webapp

Last synced: 16 Feb 2026

https://github.com/ome/.github

Community health files for the @OME organization

sec workflow-templates

Last synced: 14 Jun 2025

https://github.com/ome/ansible-role-local-accounts

Create or remove local user accounts.

ansible role

Last synced: 26 Aug 2025

https://github.com/ome/ome-ngff-java

Metadata stubs of the NGFF specification in Java

Last synced: 24 Jan 2026

https://github.com/ome/ome-ngff-tools

Document available viewers and other tools for the OME-NGFF image format

ngff ome-zarr

Last synced: 31 Jan 2026

https://github.com/ome/docker-example-omero-microservices

Example of running OMERO.server microservices

Last synced: 10 Aug 2025

https://github.com/ome/omero-prometheus-tools

Utilities for monitoring OMERO with Prometheus

monitoring ome omero omero-server omero-web prometheus

Last synced: 04 Jul 2025

https://github.com/ome/ansible-role-selinux-utils

Install utilities for interactions with SELinux

ansible role selinux

Last synced: 14 Jun 2025

https://github.com/ome/ansible-role-openstack-volume-storage

Create and attach a volume to an Openstack instance

ansible openstack role volume

Last synced: 04 Jul 2025

https://github.com/ome/minio-helm-chart

Minio helm chart for testing performance of clients on degraded networks

helm-chart idr kubernetes minio object-storage ome s3

Last synced: 11 Oct 2025

https://github.com/ome/omero-cli-duplicate

OMERO command-line tool for duplicating database objects

cli command omero plugin python

Last synced: 14 Jun 2025

Last synced: 09 Apr 2026

Last synced: 14 Jun 2025

https://github.com/ome/ansible-example-omero-onenode

Example of deploying an OMERO.server on a single-node

ansible deployment omero omero-server omero-web

Last synced: 14 Jun 2025

https://github.com/openmicroscopy/ome-ansible-molecule-dependencies

Dependencies for testing OME Ansible roles with Molecule

ansible docker molecule pypi

Last synced: 18 Jun 2025

https://github.com/ome/omero_search_engine

App which is used to search metadata (key-value pairs)

Last synced: 05 Oct 2025

https://github.com/ome/omero-common

Gradle project containing common utilities for OMERO

library omero util

Last synced: 07 Oct 2025

https://github.com/ome/omero-signup

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

omero webapp

Last synced: 07 Oct 2025

https://github.com/ome/devagent-docker

Jenkins agent container based on omero-ssh-systemd

agent docker jenkins

Last synced: 12 Jun 2025

https://github.com/ome/ome-contributing

Last synced: 24 Jan 2026

https://github.com/ome/omero-gradle-plugins

Super-project of all gradle plugins for OMERO

build gradle meta-repo omero plugins

Last synced: 17 Mar 2026

https://github.com/ome/status

Status dashboard for the OME project

dashboard gh-pages ome status

Last synced: 25 Jan 2026

Last synced: 03 Sep 2025

Last synced: 23 Jun 2025

Last synced: 01 May 2026

https://github.com/ome/ansible-role-system-monitor-agent

Installs Check_MK agent

ansible monitoring role

Last synced: 23 Jul 2025

Last synced: 20 Jan 2026

https://github.com/ome/omero-guide-introduction

Last synced: 20 Jan 2026

https://github.com/ome/ansible-role-samba-client

Install packages for accessing samba shares

ansible client role samba

Last synced: 20 Jan 2026

https://github.com/ome/ansible-role-storage-volume-initialise

Formats and mounts a storage partition

ansible partition role storage-device

Last synced: 20 Jan 2026

https://github.com/ome/omero-weberror

An OMERO.web app for generating Web errors

omero webapp

Last synced: 31 Aug 2025

https://github.com/ome/ansible-role-sudoers

Configure sudoers.

ansible role sudoers

Last synced: 20 Jan 2026

https://github.com/ome/docker-example-omero-websockets

Example of exposing OMERO.servers over Ice-based websockets

deployment example ice omero websockets

Last synced: 20 Jan 2026

https://github.com/ome/ansible-role-omero-prometheus-exporter

Ansible role for OMERO Prometheus exporter

ansible monitoring ome omero omero-server prometheus

Last synced: 20 Jan 2026

https://github.com/ome/ansible-role-nginx

Install Nginx

ansible nginx role

Last synced: 20 Jan 2026

https://github.com/ome/ome-stubs

Stubs for optional third-party components

Last synced: 20 Jan 2026

https://github.com/ome/omero-renderer

Gradle project containing rendering functionality for OMERO

component gradle jar omero

Last synced: 20 Jan 2026

https://github.com/ome/bio-formats-build

Bio-Formats top-level build for all components

bio-formats build meta-repo

Last synced: 20 Jan 2026

https://github.com/ome/schemas

A repository containing the published OME schemas for www.openmicroscopy.org

Last synced: 20 Jan 2026

https://github.com/ome/omero-model

Gradle project for generating model jar for OMERO

component gradle jar library model omero

Last synced: 20 Jan 2026

https://github.com/ome/omero-romio

Gradle project for the ROMIO library of OMERO

io jar library omero

Last synced: 20 Jan 2026

https://github.com/ome/omero-blitz

Gradle project containing Ice remoting code for OMERO

component jar lib omero server

Last synced: 20 Jan 2026

https://github.com/ome/meeting-minutes

Minutes from the weekly OME community meetings

Last synced: 20 Jan 2026

https://github.com/ome/omero-plugins

Collection of OMERO extensions (plugins, apps)

build ecosystem meta-repo omero plugins

Last synced: 20 Jan 2026

https://github.com/ome/ome-jai

OME Java ImageIO fork (deprecated)

Last synced: 20 Jan 2026

https://github.com/ome/presentations

HTML-based presentations from the OME team.

html presentations reveal-js

Last synced: 20 Jan 2026

https://github.com/ome/omero-certificates

OMERO server certificate management plugin

certificates cli deployment omero plugin server

Last synced: 20 Jan 2026

https://github.com/ome/action-ansible-molecule-list-scenarios

Last synced: 20 Jan 2026