About the Authors
- Saskia Hiltemann
-
Contributed equally to this work with: Saskia Hiltemann, Helena Rasche
Roles Conceptualization, Funding acquisition, Methodology, Project administration, Software, Supervision, Validation, Visualization, Writing – original draft, Writing – review & editing
Affiliation Clinical Bioinformatics Group, Department of Pathology, Erasmus Medical Center, Rotterdam, the Netherlands
- Helena Rasche
-
Contributed equally to this work with: Saskia Hiltemann, Helena Rasche
Roles Conceptualization, Funding acquisition, Methodology, Project administration, Software, Supervision, Validation, Visualization, Writing – original draft, Writing – review & editing
Affiliations Clinical Bioinformatics Group, Department of Pathology, Erasmus Medical Center, Rotterdam, the Netherlands, Bioinformatics Group, Department of Computer Science, Albert-Ludwigs-University Freiburg, Freiburg, Germany, Academie voor de Technologie van Gezondheid en Milieu, Avans Hogeschool, Breda, the Netherlands
- Simon Gladman
-
† Deceased.
Roles Software, Supervision, Validation
Affiliation Melbourne Bioinformatics, University of Melbourne, Parkville, Victoria, Australia
- Hans-Rudolf Hotz
-
Roles Conceptualization, Software, Validation, Writing – original draft, Writing – review & editing
Affiliations Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland, SIB Swiss Institute of Bioinformatics, Basel, Switzerland
- Delphine Larivière
-
Roles Software, Validation
Affiliation Eberly College of Science, Pennsylvania State University, State College, Pennsylvania, United States of America
- Daniel Blankenberg
-
Roles Software, Supervision, Validation, Writing – original draft, Writing – review & editing
Affiliation Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic, Cleveland, Ohio, United States of America
- Pratik D. Jagtap
-
Roles Funding acquisition, Software, Validation, Writing – review & editing
Affiliation Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, Minnesota, United States of America
- Thomas Wollmann
-
Roles Software, Validation
Affiliation Biomedical Computer Vision Group, BioQuant, IPMB, Heidelberg University, Heidelberg, Germany
- Anthony Bretaudeau
-
Roles Software, Validation
Affiliations IGEPP, INRAE, Institut Agro, Univ Rennes, Rennes, France, GenOuest Core Facility, Univ Rennes, Inria, CNRS, IRISA, Rennes, France
- Nadia Goué
-
Roles Software, Validation, Writing – review & editing
Affiliation AuBi, Mesocenter, Clermont Auvergne University, Aubière, France
- Timothy J. Griffin
-
Roles Validation, Writing – review & editing
Affiliation Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, Minnesota, United States of America
- Coline Royaux
-
Roles Software, Validation, Writing – original draft, Writing – review & editing
Affiliation PNDB French Biodiversity e-infrastructure, PatriNat, French Museum of Natural History, Concarneau, France
- Yvan Le Bras
-
Roles Project administration, Software, Validation
Affiliation PNDB French Biodiversity e-infrastructure, PatriNat, French Museum of Natural History, Concarneau, France
- Subina Mehta
-
Roles Software, Validation
Affiliation Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, Minnesota, United States of America
- Anna Syme
-
Roles Software
Affiliation Melbourne Bioinformatics, University of Melbourne, Parkville, Victoria, Australia
- Frederik Coppens
-
Roles Funding acquisition, Validation
Affiliations Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium, VIB Center for Plant Systems Biology, Ghent, Belgium
- Bert Droesbeke
-
Roles Software, Writing – review & editing
Affiliations Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium, VIB Center for Plant Systems Biology, Ghent, Belgium
- Nicola Soranzo
-
Roles Software, Validation, Writing – original draft, Writing – review & editing
Affiliation Earlham Institute, Norwich Research Park, Norwich, United Kingdom
- Wendi Bacon
-
Roles Software, Validation
Affiliation School of Life, Health and Chemical Sciences, The Open University, Milton Keynes, United Kingdom
- Fotis Psomopoulos
-
Roles Software, Validation
Affiliation Institute of Applied Biosciences, Centre for Research and Technology Hellas, Thessaloniki, Greece
- Cristóbal Gallardo-Alba
-
Roles Software, Validation, Writing – review & editing
Affiliation Bioinformatics Group, Department of Computer Science, Albert-Ludwigs-University Freiburg, Freiburg, Germany
- John Davis
-
Roles Software, Validation, Writing – review & editing
Affiliation Department of Biology, Johns Hopkins University, Baltimore, Maryland, United States of America
- Melanie Christine Föll
-
Roles Software, Validation, Writing – review & editing
Affiliations Institute for Surgical Pathology, Medical Center—University of Freiburg, Faculty of Medicine, Freiburg, Germany, Khoury College of Computer Sciences, Northeastern University, Boston, Massachusetts, United States of America, German Cancer Consortium (DKTK) and Cancer Research Center (DKFZ), Freiburg, Germany
- Matthias Fahrner
-
Roles Software, Validation, Writing – review & editing
Affiliations Institute for Surgical Pathology, Medical Center—University of Freiburg, Faculty of Medicine, Freiburg, Germany, German Cancer Consortium (DKTK) and Cancer Research Center (DKFZ), Freiburg, Germany
- Maria A. Doyle
-
Roles Software, Validation
Affiliations Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia, Sir Peter MacCallum Department of Oncology, The University of Melbourne, Melbourne, Victoria, Australia
- Beatriz Serrano-Solano
-
Roles Software, Validation, Writing – review & editing
Affiliations Bioinformatics Group, Department of Computer Science, Albert-Ludwigs-University Freiburg, Freiburg, Germany, ELIXIR Germany, Institute of Bio- and Geosciences (IBG-5)—Computational Metagenomics, Forschungszentrum Jülich GmbH, Jülich, Germany, Euro-BioImaging ERIC Bio-Hub, European Molecular Biology Laboratory (EMBL), Heidelberg, Germany
- Anne Claire Fouilloux
-
Roles Software, Validation
Affiliation Simula Research Laboratory, Oslo, Norway
- Peter van Heusden
-
Roles Software, Validation, Writing – review & editing
Affiliation South African Medical Research Council Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Bellville, South Africa
- Wolfgang Maier
-
Roles Software, Validation
Affiliation Bioinformatics Group, Department of Computer Science, Albert-Ludwigs-University Freiburg, Freiburg, Germany
- Dave Clements
-
Roles Conceptualization, Funding acquisition, Supervision
Affiliation Anaconda Inc, Austin, Texas, United States of America
- Florian Heyl
-
Roles Conceptualization, Formal analysis, Software, Validation, Writing – review & editing
Affiliation Bioinformatics Group, Department of Computer Science, Albert-Ludwigs-University Freiburg, Freiburg, Germany
- Galaxy Training Network
-
¶Membership list can be found in the Acknowledgments section.
- Björn Grüning
-
Roles Conceptualization, Formal analysis, Funding acquisition, Software, Validation, Writing – review & editing
¶‡ BG and BB also contributed equally to this work.
Affiliation Bioinformatics Group, Department of Computer Science, Albert-Ludwigs-University Freiburg, Freiburg, Germany
- Bérénice Batut
-
Roles Conceptualization, Funding acquisition, Investigation, Methodology, Project administration, Software, Supervision, Validation, Visualization, Writing – original draft, Writing – review & editing
* E-mail: berenice.batut@gmail.com
¶‡ BG and BB also contributed equally to this work.
Affiliation Bioinformatics Group, Department of Computer Science, Albert-Ludwigs-University Freiburg, Freiburg, Germany
Competing Interests
We have read the journal’s policy and the authors of this manuscript have the following competing interests: DB has a significant financial interest in GalaxyWorks, a company that may have a commercial interest in the results of this research and technology. This potential conflict of interest has been reviewed and is managed by the Cleveland Clinic. This does not alter our adherence to all the PLOS Computational Biology policies on sharing data and materials.