title: Collaborative analysis of multi-gigapixel imaging data using Cytomine.
abstract: Collaborative analysis of massive imaging datasets is essential to enable scientific discoveries.
  
  
  
  We developed Cytomine to foster active and distributed collaboration of multidisciplinary teams for large-scale image-based studies. It uses web development methodologies and machine learning in order to readily organize, explore, share and analyze (semantically and quantitatively) multi-gigapixel imaging data over the internet. We illustrate how it has been used in several biomedical applications.
  
  
  
  Cytomine (http://www.cytomine.be/) is freely available under an open-source license from http://github.com/cytomine/ A documentation wiki (http://doc.cytomine.be) and a demo server (http://demo.cytomine.be) are also available.
  
  
  
  info@cytomine.be
  
  
  
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium Bioimage Analysis Unit, Institut Pasteur, Paris, France.
authors.forename: Raphaël
authors.initials: R
authors.lastname: Marée
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium.
authors.forename: Loïc
authors.initials: L
authors.lastname: Rollus
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium.
authors.forename: Benjamin
authors.initials: B
authors.lastname: Stévens
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium.
authors.forename: Renaud
authors.initials: R
authors.lastname: Hoyoux
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium.
authors.forename: Gilles
authors.initials: G
authors.lastname: Louppe
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium.
authors.forename: Rémy
authors.initials: R
authors.lastname: Vandaele
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium.
authors.forename: Jean-Michel
authors.initials: JM
authors.lastname: Begon
authors.affiliation: Institute of Biophysics, Medical University of Graz, Graz, Austria.
authors.forename: Philipp
authors.initials: P
authors.lastname: Kainz
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium.
authors.forename: Pierre
authors.initials: P
authors.lastname: Geurts
authors.affiliation: Systems and Modeling, Department of Electrical Engineering and Computer Science and GIGA-Research, University of Liège, Liège, Belgium.
authors.forename: Louis
authors.initials: L
authors.lastname: Wehenkel
mesh_terms: D007090:Image Interpretation, Computer-Assisted; D020407:Internet; D012984:Software; D013223:Statistics as Topic