Hervé Ménager

According to our database, Hervé Ménager authored at least 29 papers between 2005 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2024

WorkflowHub: a registry for computational workflows.

Johan Gustafsson, Sean R. Wilkinson, Finn Bacall, Luca Pireddu, Stian Soiland-Reyes, Simone Leo, Stuart Owen, Nick S. Juty, José María Fernández, Björn A. Grüning, Tom Brown, Hervé Ménager, Salvador Capella-Gutiérrez, Frederik Coppens, Carole A. Goble

CoRR, 2024

Representing bioinformatics Nextflow workflows in RO-Crate: challenges and opportunities.

George Marchment, Marie Schmit, Clémence Sebe, Frédéric Lemoine, Hervé Ménager, Sarah Cohen-Boulakia

Proceedings of the 15th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences, 2024

2023

The EOSC-Life Workflow Collaboratory for the Life Sciences.

Carole A. Goble, Finn Bacall, Stian Soiland-Reyes, Stuart Owen, Ignacio Eguinoa, Bert Droesbeke, Hervé Ménager, Laura Rodríguez-Navas, José María Fernández, Björn A. Grüning, Simone Leo, Luca Pireddu, Michael R. Crusoe, Johan Gustafsson, Salvador Capella-Gutiérrez, Frederik Coppens

Proceedings of the 1st Conference on Research Data Infrastructure - Connecting Communities, 2023

2022

Nine best practices for research software registries and repositories.

Daniel Garijo, Hervé Ménager, Lorraine J. Hwang, Ana Trisovic, Michael Hucka, Thomas Morrell, Alice Allen

PeerJ Comput. Sci., 2022

Methods included.

Michael R. Crusoe, Sanne Abeln, Alexandru Iosup, Peter Amstutz, John Chilton, Nebojsa Tijanic, Hervé Ménager, Stian Soiland-Reyes, Bogdan Gavrilovic, Carole A. Goble, The Cwl Community

Commun. ACM, 2022

HARIBOSS: a curated database of RNA-small molecules structures to aid rational drug design.

Francesco P. Panei, Rachel Torchet, Hervé Ménager, Paraskevi Gkeka, Massimiliano Bonomi

Bioinform., 2022

2021

Bioimage analysis workflows: community resources to navigate through a complex ecosystem.

Perrine Paul-Gilloteaux, Sébastien Tosi, Jean-Karim Hériché, Alban Gaignard, Hervé Ménager, Raphaël Marée, Volker Bäcker, Anna H. Klemm, Matús Kalas, Chong Zhang, Kota Miura, Julien Colombelli

F1000Research, 2021

Perspectives on automated composition of workflows in the life sciences.

Anna-Lena Lamprecht, Magnus Palmblad, Jon C. Ison, Veit Schwämmle, Mohammad Sadnan Al Manir, Ilkay Altintas, Christopher J. O. Baker, Ammar Ben Hadj Amor, Salvador Capella-Gutiérrez, Paulos Charonyktakis, Michael R. Crusoe, Yolanda Gil, Carole A. Goble, Timothy J. Griffin, Paul Groth, Hans Ienasescu, Pratik D. Jagtap, Matús Kalas, Vedran Kasalica, Alireza Khanteymoori, Tobias Kuhn, Hailiang Mei, Hervé Ménager, Steffen Möller, Robin A. Richardson, Vincent Robert, Stian Soiland-Reyes, Robert Stevens, Szaniszlo Szoke, Suzan Verberne, Aswin Verhoeven, Katherine Wolstencroft

F1000Research, 2021

Methods Included: Standardizing Computational Reuse and Portability with the Common Workflow Language.

Michael R. Crusoe, Sanne Abeln, Alexandru Iosup, Peter Amstutz, John Chilton, Nebojsa Tijanic, Hervé Ménager, Stian Soiland-Reyes, Carole A. Goble

CoRR, 2021

The iPPI-DB initiative: a community-centered database of protein-protein interaction modulators.

Rachel Torchet, Karen Druart, Luis Checa Ruano, Alexandra Moine-Franel, Hélène Borges, Olivia Doppelt-Azeroual, Bryan Brancotte, Fabien Mareuil, Michael Nilges, Hervé Ménager, Olivier Sperandio

Bioinform., 2021

Viral Host Range database, an online tool for recording, analyzing and disseminating virus-host interactions.

Quentin Lamy-Besnier, Bryan Brancotte, Hervé Ménager, Laurent Debarbieux

Bioinform., 2021

2020

ARIAweb: a server for automated NMR structure calculation.

Fabrice Allain, Fabien Mareuil, Hervé Ménager, Michael Nilges, Benjamin Bardiaux

Nucleic Acids Res., 2020

Nine Best Practices for Research Software Registries and Repositories: A Concise Guide.

Alain Monteil, Alejandra N. González-Beltrán, Alexandros Ioannidis, Alice Allen, Allen Lee, Anita E. Bandrowski, Bruce E. Wilson, Bryce D. Mecum, Caifan Du, Carly Robinson, Daniel Garijo, Daniel S. Katz, David Long, Genevieve Milliken, Hervé Ménager, Jessica Hausman, Jurriaan H. Spaaks, Katrina Fenlon, Kristin Vanderbilt, Lorraine J. Hwang, Lynn Davis, Martin Fenner, Michael R. Crusoe, Michael Hucka, Mingfang Wu, Neil P. Chue Hong, Peter J. Teuben, Shelley Stall, Stephan Druskat, Ted Carnevale, Thomas Morrell

CoRR, 2020

Community curation of bioinformatics software and data resources.

Jon C. Ison, Hervé Ménager, Bryan Brancotte, Erik Jaaniso, Ahto Salumets, Tomás Racek, Anna-Lena Lamprecht, Magnus Palmblad, Matús Kalas, Piotr Chmura, John M. Hancock, Veit Schwämmle, Hans-Ioan Ienasescu

Briefings Bioinform., 2020

2018

A reusable tree-based web-visualization to browse EDAM ontology, and contribute to it.

Bryan Brancotte, Christophe Blanchet, Hervé Ménager

J. Open Source Softw., 2018

Recommendations for the packaging and containerizing of bioinformatics software.

Björn A. Grüning, Olivier Sallou, Pablo A. Moreno, Felipe da Veiga Leprevost, Hervé Ménager, Dan Søndergaard, Hannes L. Röst, Timo Sachsenberg, Brian O'Connor, Fábio Madeira, Victoria Dominguez Del Angel, Michael R. Crusoe, Susheel Varma, Daniel J. Blankenberg, Rafael C. Jiménez, Daniel Blankenberg, Yasset Pérez-Riverol

F1000Research, 2018

2017

Scientific workflows for computational reproducibility in the life sciences: Status, challenges and opportunities.

Sarah Cohen Boulakia, Khalid Belhajjame, Olivier Collin, Jérôme Chopard, Christine Froidevaux, Alban Gaignard, Konrad Hinsen, Pierre Larmande, Yvan Le Bras, Frédéric Lemoine, Fabien Mareuil, Hervé Ménager, Christophe Pradal, Christophe Blanchet

Future Gener. Comput. Syst., 2017

Using bio.tools to generate and annotate workbench tool descriptions.

Kenzo-Hugo Hillion, Ivan Kuzmin, Anton Khodak, Eric Rasche, Michael R. Crusoe, Hedi Peterson, Jon C. Ison, Hervé Ménager

F1000Research, 2017

2016

Using registries to integrate bioinformatics tools and services into workbench environments.

Hervé Ménager, Matús Kalas, Kristoffer Rapacki, Jon C. Ison

Int. J. Softw. Tools Technol. Transf., 2016

Tools and data services registry: a community effort to document bioinformatics resources.

Jon C. Ison, Kristoffer Rapacki, Hervé Ménager, Matús Kalas, Emil Rydza, Piotr Chmura, Christian Anthon, Niall Beard, Karel Berka, Dan M. Bolser, Tim Booth, Anthony Bretaudeau, Jan Brezovsky, Rita Casadio, Gianni Cesareni, Frederik Coppens, Michael Cornell, Gianmauro Cuccuru, Kristian Davidsen, Gianluca Della Vedova, Tunca Dogan, Olivia Doppelt-Azeroual, Laura Emery, Elisabeth Gasteiger, Thomas Gatter, Tatyana Goldberg, Marie Grosjean, Björn A. Grüning, Manuela Helmer-Citterich, Hans Ienasescu, Vassilios Ioannidis, Martin Closter Jespersen, Rafael C. Jiménez, Nick S. Juty, Peter Juvan, Maximilian Koch, Camille Laibe, Jing-Woei Li, Luana Licata, Fabien Mareuil, Ivan Micetic, Rune Møllegaard Friborg, Sébastien Moretti, Chris Morris, Steffen Möller, Aleksandra Nenadic, Hedi Peterson, Giuseppe Profiti, Peter M. Rice, Paolo Romano, Paola Roncaglia, Rabie Saidi, Andrea Schafferhans, Veit Schwämmle, Callum Smith, Maria Maddalena Sperotto, Heinz Stockinger, Radka Svobodová Vareková, Silvio C. E. Tosatto, Victor de la Torre, Paolo Uva, Allegra Via, Guy Yachdav, Federico Zambelli, Gert Vriend, Burkhard Rost, Helen E. Parkinson, Peter Løngreen, Søren Brunak

Nucleic Acids Res., 2016

2015

BioShaDock: a community driven bioinformatics shared Docker-based tools registry.

François Moreews, Olivier Sallou, Hervé Ménager, Yvan Le Bras, Cyril Monjeaud, Christophe Blanchet, Olivier Collin

F1000Research, 2015

2010

Semantic Map for Structural Bioinformatics: Enhanced Service Discovery Based on High Level Concept Ontology.

Edouard Strauser, Mikaël Naveau, Hervé Ménager, Julien Maupetit, Zoé Lacroix, Pierre Tufféry

Proceedings of the Resource Discovery - Third International Workshop, 2010

Bioinformatics Applications Discovery and Composition with the Mobyle Suite and MobyleNet.

Hervé Ménager, Vivek Gopalan, Bertrand Néron, Sandrine Larroudé, Julien Maupetit, Adrien Saladin, Pierre Tufféry, Yentram Huyen, Bernard Caudron

Proceedings of the Resource Discovery - Third International Workshop, 2010

2009

Mobyle: a new full web bioinformatics framework.

Bertrand Néron, Hervé Ménager, Corinne Maufrais, Nicolas Joly, Julien Maupetit, Sébastien Letort, Sébastien Carrère, Pierre Tufféry, Catherine Letondal

Bioinform., 2009

2007

Bioinformatics Services Discovery Using Ontology Classification.

Hervé Ménager, Zoé Lacroix, Pierre Tufféry

Proceedings of the 2007 IEEE International Conference on Services Computing, 2007

2006

Semantic Map of Services for Structural Bioinformatics.

Pierre Tufféry, Zoé Lacroix, Hervé Ménager

Proceedings of the 18th International Conference on Scientific and Statistical Database Management, 2006

A Workflow Engine for the Execution of Scientific Protocols.

Hervé Ménager, Zoé Lacroix

Proceedings of the 22nd International Conference on Data Engineering Workshops, 2006

2005

SemanticBio: Building Conceptual Scientific Workflows over Web Services.

Zoé Lacroix, Hervé Ménager

Proceedings of the Data Integration in the Life Sciences, Second InternationalWorkshop, 2005

BioMap: Discovering Schema Mapping Using Ontologies.

Zoé Lacroix, Sumedha Gholba, Hervé Ménager

Proceedings of the Fourth International IEEE Computer Society Computational Systems Bioinformatics Conference Workshops & Poster Abstracts, 2005