Edinburgh Research Explorer

PyOmeroUpload: A Python toolkit for uploading images and metadata to OMERO

Dataset

Related Edinburgh Organisations

PublisherZenodo
Date made available9 Apr 2020

Abstract

A Python toolkit for automatically extracting metadata from experiment logs and text files, processing images and uploading these payloads to OMERO servers to create fully annotated, multidimensional datasets. The toolkit comes packaged in portable, platform-independent Docker images that enable users to deploy and run the utilities easily, regardless of Operating System constraints. A selection of use cases is provided, illustrating the primary capabilities and flexibility offered with the toolkit, along with a discussion of limitations and potential future extensions. PyOmeroUpload is available from: https://github.com/SynthSys/pyOmeroUpload.

Data Citation

Hay J, Troup E, Clark I et al. PyOmeroUpload: A Python toolkit for uploading images and metadata to OMERO. PyOmeroUpload is available from: https://github.com/SynthSys/pyOmeroUpload. Archived source code at time of publication: https://doi.org/10.5281/zenodo.374648640.

ID: 152828666