Tools and Sources#
Overview of software, libraries, and CLI tools that generate, read, or convert FAIR-IO or its components.
Tools#
RO-Crate tools#
List of RO-Crate tools (with description and status)
NGFF-Converter#
NGFF-Converter is a GUI application for conversion of bioimage formats into OME-NGFF (Next-Generation File Format) or OME-TIFF.
Plattform: Desktop GUI application
Link: glencoesoftware/NGFF-Converter
OME-NGFF-Validator#
Validates OME-Zarr v.0.5 files containing ro-crate-metatada.json.
Plattform: Web App
Link: https://ome.github.io/ome-ngff-validator/
Example: https://ome.github.io/ome-ngff-validator/?source=https://radosgw.public.os.wwu.de/n4bi-fzj/ome2024-ngff-challenge/1micron_reconstructions_VOI2.zarr
omero-cli-transfer#
An OMERO CLI plugin for creating transfer packets between OMERO servers. Allows export of OMERO image data compliant with RO-Crate. Also offers an ARC plugin that can be used to transfer OMERO projects to ARC repositories.
Plattform: CLI tool
Link: ome/omero-cli-transfer
omero-rdf#
An OMERO CLI plugin for exporting RDF from OMERO.
Plattform: CLI tool
Link: German-BioImaging/omero-rdf
OMERO.forms#
OMERO.forms is an extension to OMERO.web to enhance metadata input and provide provenance. Forms can be designed in a powerful and flexible JSON Schema, using the Designer - Editor component of OMERO.forms.
Plattform: OMERO.web plugin
Link: NL-BioImaging/OMERO.forms
Sources#
OME-OWL#
The Open Microscopy Environment Ontology (OME-OWL) is a light microscopy imaging ontology that has been developed through translation of the OME data model.
Plattform: Semantic-Web /Ontologie
Link: german-BioImaging/ome-owl