Bulk annotation workflow with omero.forms

Fortmann-Grote, Carsten

doi:https://zenodo.org/doi/10.5281/zenodo.4777496

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Bulk annotation workflow with omero.forms

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Fortmann-Grote, Carsten
Department Microbial Population Biology, Max Planck Institute for Evolutionary Biology, Max Planck Society;

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Citation

Fortmann-Grote, C. (2021). Bulk annotation workflow with omero.forms. doi:https://zenodo.org/doi/10.5281/zenodo.4777496.

Cite as: https://hdl.handle.net/21.11116/0000-000E-74DD-7

Abstract

n this video we present how users of the Omero Image Database (https://www.openmicroscopy.org/) can import additional metadata from a spreadsheet (e.g. during a microscopy session) and attach the information as key-value pairs (MapAnnotation) to the corresponding image. Our workflow combines the "omero-forms" plugin (https://pypi.org/project/omero-forms/) with the "Omero Bulk Annotation Tools" script collection from https://github.com/mpievolbio-scicomp/obat.

This video is a "flash talk" contribution for the OME Community Meeting 2021.