Plant Image Analysis Plant Image Analysis

Cytomine

Systems and Modelling Group @ University of Liège
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Scientific article
Collaborative analysis of multi-gigapixel imaging data using Cytomine.
R. Marée, L. Rollus, B. Stévens, R. Hoyoux, G. Louppe, R. Vandaele, JM. Begon, P. Kainz, P. Geurts, L. Wehenkel,
2016 , Bioinformatics , 0(0), 0
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Description

The CYTOMINE project (started in 2010) is continuously developing a rich internet application using modern web technologies, databases, and machine learning to foster active and distributed collaboration and ease large-scale image exploitation. Our software is e.g. being used by life scientists to help them better evaluate drug treatments or understand biological processes directly from whole-slide tissue images, by pathologists to share and ease their diagnosis, and by teachers and students for pathology training purposes.

Although our initial focus was on biomedical research in cytology and histology whole-slide images, we are developing a generic software that is useful for other types of high-dimensional imaging data from various fields (e.g. botany, geology, astronomy, environmental biology, ...). To ease its reuse in any context, Cytomine is open-source.

Cytomine website

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Overview
Operating system
windows, mac, linux,

Licence
open-source, freeware,

Measured variables
surface,

Automation level
automated, semi-automated,

Plant requirements
any,

Image requirements
any,

Export formats
csv,

Other information
Webase application

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