Simone Leo
7 Papers
1 Citations
Simone Leo is an academic researcher. The author has contributed to research in topics: Computer science & Workflow. The author has an hindex of 1, co-authored 5 publications.
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Papers
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update
Enis Afgan,Anton Nekrutenko,Björn Grüning,Daniel Blankenberg,Jeremy Goecks,Michael C. Schatz,Alexander E. Ostrovsky,Alexandru Mahmoud,Andrew Lonie,Anna Syme,Anne Fouilloux,Anthony Bretaudeau,Anup Kumar,Arthur C. Eschenlauer,Assunta D. Desanto,Aysam Guerler,Beatriz Serrano-Solano,Bérénice Batut,Bradley W. Langhorst,Bridget Carr,Bryan Raubenolt,Cameron J. Hyde,Catherine J. Bromhead,Christopher B. Barnett,Coline Royaux,Cristóbal L. García Gallardo,Daniel Fornika,Dannon Baker,Dave Bouvier,Dave Clements,David A. de Lima Morais,David Lopez Tabernero,Delphine Larivière,E. Nasr,Federico Zambelli,Florian Heyl,Fotis Psomopoulos,Frederik Coppens,Gareth Price,Gianmauro Cuccuru,Gildas Le Corguillé,Gregory Von Kuster,Gulsum Gudukbay,Helena Rasche,Hans-Rudolf Hotz,Ignacio Eguinoa,Igor V. Makunin,Isuru Ranawaka,James Taylor,Jayadev Joshi,Jennifer Hillman-Jackson,John Chilton,Kaivan Kamali,Keith Suderman,Krzysztof Poterlowicz,Yvan Le Bras,Lucille Lopez-Delisle,Luke Sargent,Madeline E. Bassetti,M. A. Tangaro,Marius van den Beek,Martin Čech,Matthias Bernt,Matthias Fahrner,Mehmet Tekman,Melanie Föll,Michael R. Crusoe,Miguel Angel Roncoroni,N. K. Kucher,Nathaniel Coraor,Nicholas Stoler,Nick Rhodes,Nicola Soranzo,Niko Pinter,Nuwan Goonasekera,Pablo Moreno,Pavankumar Videm,Petera Melanie,Pietro Mandreoli,Pratik D. Jagtap,Qiang Gu,Ralf J. M. Weber,Ross Lazarus,Ruben H.P. Vorderman,Saskia Hiltemann,Sergey Golitsynskiy,Shilpa Garg,Simon Bray,Simon Gladman,Simone Leo,Subina Mehta,Timothy J. Griffin,Vahid Jalili,Yves Vandenbrouck,Vi-Kwei Wen,Vijaykrishna Nagampalli,W. Bacon,W. L. De Koning,Wolf-Martin Maier,P. J. Briggs +99 more
TL;DR: Key Galaxy technical developments include an improved user interface for launching large-scale analyses with many files, interactive tools for exploratory data analysis, and a complete suite of machine learning tools.
Creating lightweight FAIR Digital Objects with RO-Crate
Stian Soiland-Reyes,Peter Sefton,Leyla Jael Castro,Frederik Coppens,Daniel Garijo,Simone Leo,Marc Portier,Paul Groth +7 more
TL;DR: This work presents how RO-Crate has been followed and turned research outcomes into FDOs by publishingRO-Crates on the Web using HTTP, following best practices for Linked Data.
Toward a common standard for data and specimen provenance in life sciences
Rudolf Wittner,Petr Holub,Cecilia Mascia,Francesca Frexia,Heimo Müller,Markus Plass,Clare M. Allocca,Tony Burdett,Ibon Cancio,Adriane Chapman,Martin Chapman,Mélanie Courtot,Vasa Curcin,Mark Elliot,Katrina Exter,Carole Goble,Martin Golebiewski,Bron Kisler,Andreas Kremer,Simone Leo,Sheng Lin-Gibson,Anna Marsano,Marco Mattavelli,Josh Moore,Hiroki Nakae,Isabelle Perseil,James P. Sluka,Stian Soiland-Reyes,Caterina Strambio-De-Castillia,Michael Sussman,Jason R. Swedlow,Kurt Zatloukal,Jörg Geiger +32 more
TL;DR: Petr Holub, Rudolf Wiener and Jörg Geiger as mentioned in this paper have published a survey on the state of the art in the field of bioinformatics.
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Enhancing RDM in Galaxy by integrating RO-Crate
TL;DR: It is introduced how the Galaxy research environment integrates with RO-Crate as an implementation of Findable Accessible Interoperable Reproducible Digital Objects (FAIR Digital Objects / FDO) and how usingRO-Crates as an exchange mechanism of workflows and their execution history helps integrate Galaxy with the wider ecosystem of ELIXIR and the European Open Science Cloud to enable FAIR and reproducible data analysis.
UvA-DARE (Digital Academic Repository) Packaging research artefacts with RO-Crate
Peter Sefton,Mercè Crosas,Leyla Jael Castro,Frederik Coppens,José M. Fernández,Daniel Garijo,Björn Grüning,Marco La Rosa,Simone Leo,Eoghan Ó Carragáin,Marc Portier,Ana Trisovic,Paul Groth,Carole Goble +13 more
TL;DR: RO-Crate as discussed by the authors is an open, community-driven, and lightweight approach to packaging research artefacts along with their metadata in a machine readable manner, which is based on Schema.org annotations in JSON-LD.
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