Pinned Repositories
agilo-hooks
Modification to the default post-commit hooks in agilo (http://agile42.com/cms/pages/agilo/) to support multi-repositories. Parts of this patch were submitted as https://dev.agile42.com/ticket/1086
NGFF-GBI-2022-Workshop
See https://twitter.com/GlobalBioImage/status/1506593753431216130
ome-cmd-example
Example repository for developing your own OMERO server extension.
omero-server-docker
OMERO.server production docker image
omero-web-docker
OMERO.web production docker image
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.
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.
design
OME Design proposals
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.
zarr-python
An implementation of chunked, compressed, N-dimensional arrays for Python.
joshmoore's Repositories
joshmoore/omero-rdf
A plugin for exporting RDF from OMERO
joshmoore/ebi-webinar-2025
"Towards open and standardised imaging data" 28 May 2025
joshmoore/joshmoore.github.io
Personal pages
joshmoore/jupyterhub-deploy-docker
Reference deployment of JupyterHub with docker
joshmoore/neuroglancer
WebGL-based viewer for volumetric data
joshmoore/simple-hcs-ome-zarr
joshmoore/apacheds-docker
Dockerfile to build an ApacheDS container providing an LDAP and optionally a Kerberos service.
joshmoore/BioHackathon24
Repository for de.NBI24 BioHackathon project: "Increasing interoperability of bioimage dataset resources"
joshmoore/conda-forge-repodata-patches-feedstock
A conda-smithy repository for conda-forge-repodata-patches.
joshmoore/irods_working_group_imaging
joshmoore/jupyter-tools
Collection of tools for working with JupyterHub and notebooks
joshmoore/linkml-runtime
Runtime support for linkml generated models
joshmoore/napari-ome-zarr-feedstock
A conda-smithy repository for napari-ome-zarr.
joshmoore/ngff
Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
joshmoore/numcodecs
A Python package providing buffer compression and transformation codecs for use in data storage and communication applications.
joshmoore/ome-model
OME model (specification, code generator, implementation)
joshmoore/ome-zarr-feedstock
A conda-smithy repository for ome-zarr.
joshmoore/ome-zarr-py
Experimental implementation of images in Zarr files.
joshmoore/omero-cli-zarr
joshmoore/omero-marshal
OMERO marshalling infrastructure
joshmoore/omero-py
Python project containing Ice remoting code for OMERO
joshmoore/omero-test-infra
Test infrastructure for decoupled repositories
joshmoore/ro-governance
DRAFT governance for RO-Crate community
joshmoore/w3id.org
Website source code for w3id.org.
joshmoore/www.openmicroscopy.org
joshmoore/zarr-developers.github.io
Zarr blog
joshmoore/zarr-python
An implementation of chunked, compressed, N-dimensional arrays for Python.
joshmoore/zarr-specs
Zarr core protocol for storage and retrieval of N-dimensional typed arrays
joshmoore/zarrs-dot-github
joshmoore/zeps
Zarr Enhancement Proposals