Open Microscopy Environment

Repositories

• omero-guide-figure
  Python 4 0 2 1 Updated May 12, 2021

• www.openmicroscopy.org

  OME main website

  jekyll-site ome
  HTML CC-BY-4.0 22 4 4 3 Updated May 12, 2021

• omero-figure

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

  webapp omero
  JavaScript AGPL-3.0 24 13 39 3 Updated May 12, 2021

• ZarrReader
  Java 2 0 0 1 Updated May 12, 2021

• ome_zarr_test_suite

  Test suite of reader and writer implementations
  Python 2 1 1 1 Updated May 12, 2021

• training-scripts

  A set of scripts to access, analyse image and metadata from OMERO
  Python 13 4 3 5 Updated May 11, 2021

• meeting-minutes

  Minutes from the weekly OME community meetings
  4 0 0 0 Updated May 11, 2021

• 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 …

  python java image database server omero
  Java GPL-2.0 95 149 21 13 Updated May 11, 2021

• 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.

  java metadata image format-reader format-converter bio-formats life-sciences-image
  Java GPL-2.0 209 259 117 28 Updated May 11, 2021

• bio-formats-build

  Bio-Formats top-level build for all components

  build bio-formats meta-repo
  Shell 10 0 1 0 Updated May 11, 2021

• omero-plugins

  Collection of OMERO extensions (plugins, apps)

  ecosystem build plugins omero meta-repo
  8 0 1 0 Updated May 11, 2021

• omero-python-superbuild

  OMERO build for Python server components

  python build omero meta-repo
  3 0 1 0 Updated May 11, 2021

• omero-guides

  Guides for using OMERO

  docs help omero guides manuals
  Python 4 0 9 1 Updated May 10, 2021

• ngff-latency-benchmark
  Jupyter Notebook 6 2 3 1 Updated May 10, 2021

• ome-zarr-py

  Experimental implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
  Python 15 21 11 3 Updated May 10, 2021

• omero-ms-zarr

  Experimental micro-service for implementing the Zarr spec over HTTP

  microservice io omero zarr
  Java GPL-2.0 11 9 17 0 Updated May 10, 2021

• omero-cli-server

  CLI plugin for managing an OMERO.server
  Python GPL-2.0 3 1 0 2 Updated May 10, 2021

• omero-certificates

  OMERO server certificate management plugin

  plugin cli deployment server certificates omero
  Python GPL-2.0 2 0 1 0 Updated May 10, 2021

• omero-cli-zarr
  Python GPL-2.0 8 4 10 1 Updated May 10, 2021

• omero-rois

  OMERO python ROI utils

  python omero
  Python GPL-2.0 4 1 2 1 Updated May 10, 2021

• omero-web

  Django-based OMERO.web client

  python client django web omero
  Python 16 4 64 (3 issues need help) 14 Updated May 10, 2021

• omero-analysis-desktop
  Jupyter Notebook BSD-3-Clause 1 0 1 0 Updated May 10, 2021

• bio-formats-documentation

  Bio-Formats documentation

  documentation bio-formats
  Java GPL-2.0 16 4 2 2 Updated May 10, 2021

• omero-gallery

  webapp omero
  JavaScript AGPL-3.0 11 3 20 2 Updated May 10, 2021

• omero-iviewer

  An OMERO.web app allowing to view images

  webapp omero
  JavaScript 24 13 44 9 Updated May 10, 2021

• prod-playbooks

  Playbooks used by the OME team for deploying production services including OMERO

  ansible deployment production omero playbooks
  Python BSD-2-Clause 16 2 11 1 Updated May 7, 2021

• omero-guide-fiji
  Jupyter Notebook 6 0 0 0 Updated May 7, 2021

• omero-parade

  OMERO.web plugin for displaying Dataset thumbnails or Plates in webclient center panel

  webapp omero
  JavaScript AGPL-3.0 10 0 20 4 Updated May 7, 2021

• ansible-roles

  Collection of OME Ansible roles

  ansible role ansible-roles meta-repo
  Python BSD-2-Clause 4 1 1 0 Updated May 7, 2021

• omero-deployment-examples

  Examples playbooks for installing OMERO with Ansible and Docker

  docker ansible example playbook compose omero
  11 5 2 0 Updated May 7, 2021