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Cited by 936

The DOI matches its Crossref record; 25 of the 25 references it cites were found in a registry or an index.

The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update

Open access
The Galaxy Community, Abueg, Linelle Ann L, Afgan, Enis, Allart, Olivier, Awan, Ahmed H, Bacon, Wendi A, Baker, Dannon, Bassetti, Madeline, Batut, Bérénice, Bernt, Matthias, Blankenberg, Daniel, Bombarely, Aureliano, Bretaudeau, Anthony, Bromhead, Catherine J, Burke, Melissa L, Capon, Patrick K, Čech, Martin, Chavero-Díez, María, Chilton, John M, Collins, Tyler J, Coppens, Frederik, Coraor, Nate, Cuccuru, Gianmauro, Cumbo, Fabio, Davis, John, De Geest, Paul F, de Koning, Willem, Demko, Martin, DeSanto, Assunta, Begines, José Manuel Domínguez, Doyle, Maria A, Droesbeke, Bert, Erxleben-Eggenhofer, Anika, Föll, Melanie C, Formenti, Giulio, Fouilloux, Anne, Gangazhe, Rendani, Genthon, Tanguy, Goecks, Jeremy, Beltran, Alejandra N Gonzalez, Goonasekera, Nuwan A, Goué, Nadia, Griffin, Timothy J, Grüning, Björn A, Guerler, Aysam, Gundersen, Sveinung, Gustafsson, Ove Johan Ragnar, Hall, Christina, Harrop, Thomas W, Hecht, Helge, Heidari, Alireza, Heisner, Tillman, Heyl, Florian, Hiltemann, Saskia, Hotz, Hans-Rudolf, Hyde, Cameron J, Jagtap, Pratik D, Jakiela, Julia, Johnson, James E, Joshi, Jayadev, Jossé, Marie, Jum’ah, Khaled, Kalaš, Matúš, Kamieniecka, Katarzyna, Kayikcioglu, Tunc, Konkol, Markus, Kostrykin, Leonid, Kucher, Natalie, Kumar, Anup, Kuntz, Mira, Lariviere, Delphine, Lazarus, Ross, Bras, Yvan Le, Corguillé, Gildas Le, Lee, Justin, Leo, Simone, Liborio, Leandro, Libouban, Romane, Tabernero, David López, Lopez-Delisle, Lucille, Los, Laila S, Mahmoud, Alexandru, Makunin, Igor, Marin, Pierre, Mehta, Subina, Mok, Winnie, Moreno, Pablo A, Morier-Genoud, François, Mosher, Stephen, Müller, Teresa, Nasr, Engy, Nekrutenko, Anton, Nelson, Tiffanie M, Oba, Asime J, Ostrovsky, Alexander, Polunina, Polina V, Poterlowicz, Krzysztof, Price, Elliott J, Price, Gareth R, Rasche, Helena, Raubenolt, Bryan, Royaux, Coline, Sargent, Luke, Savage, Michelle T, Savchenko, Volodymyr, Savchenko, Denys, Schatz, Michael C, Seguineau, Pauline, Serrano-Solano, Beatriz, Soranzo, Nicola, Srikakulam, Sanjay Kumar, Suderman, Keith, Syme, Anna E, Tangaro, Marco Antonio, Tedds, Jonathan A, Tekman, Mehmet, Cheng (Mike) Thang, Wai, Thanki, Anil S, Uhl, Michael, van den Beek, Marius, Varshney, Deepti, Vessio, Jenn, Videm, Pavankumar, Von Kuster, Greg, Watson, Gregory R, Whitaker-Allen, Natalie, Winter, Uwe, Wolstencroft, Martin, Zambelli, Federico, Zierep, Paul, Zoabi, Rand·2024·Nucleic Acids Research
DOI 10.1093/nar/gkae410
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Abstract

Galaxy (https://galaxyproject.org) is deployed globally, predominantly through free-to-use services, supporting user-driven research that broadens in scope each year. Users are attracted to public Galaxy services by platform stability, tool and reference dataset diversity, training, support and integration, which enables complex, reproducible, shareable data analysis. Applying the principles of user experience design (UXD), has driven improvements in accessibility, tool discoverability through Galaxy Labs/subdomains, and a redesigned Galaxy ToolShed. Galaxy tool capabilities are progressing in two strategic directions: integrating general purpose graphical processing units (GPGPU) access for cutting-edge methods, and licensed tool support. Engagement with global research consortia is being increased by developing more workflows in Galaxy and by resourcing the public Galaxy services to run them. The Galaxy Training Network (GTN) portfolio has grown in both size, and accessibility, through learning paths and direct integration with Galaxy tools that feature in training courses. Code development continues in line with the Galaxy Project roadmap, with improvements to job scheduling and the user interface. Environmental impact assessment is also helping engage users and developers, reminding them of their role in sustainability, by displaying estimated CO2 emissions generated by each Galaxy job.

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Research works printed but not linked: 1

  1. Black, 2022, EDAM: the bioscientific data analysis ontology (update 2021), F1000Research

Cited by

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Metadata

Authors
Community, T. G., Abueg, L. A. L., Afgan, E., Allart, O., Awan, A. H., Bacon, W. A., Baker, D., Bassetti, M., Batut, B., Bernt, M., Blankenberg, D., Bombarely, A., Bretaudeau, A., Bromhead, C. J., Burke, M. L., Capon, P. K., Čech, M., Chavero-Díez, M., Chilton, J. M., Collins, T. J., Coppens, F., Coraor, N., Cuccuru, G., Cumbo, F., Davis, J., De Geest, P. F., de Koning, W., Demko, M., DeSanto, A., Begines, J. M. D., Doyle, M. A., Droesbeke, B., Erxleben-Eggenhofer, A., Föll, M. C., Formenti, G., Fouilloux, A., Gangazhe, R., Genthon, T., Goecks, J., Beltran, A. N. G., Goonasekera, N. A., Goué, N., Griffin, T. J., Grüning, B. A., Guerler, A., Gundersen, S., Gustafsson, O. J. R., Hall, C., Harrop, T. W., Hecht, H., Heidari, A., Heisner, T., Heyl, F., Hiltemann, S., Hotz, H.-R., Hyde, C. J., Jagtap, P. D., Jakiela, J., Johnson, J. E., Joshi, J., Jossé, M., Jum’ah, K., Kalaš, M., Kamieniecka, K., Kayikcioglu, T., Konkol, M., Kostrykin, L., Kucher, N., Kumar, A., Kuntz, M., Lariviere, D., Lazarus, R., Bras, Y. L., Corguillé, G. L., Lee, J., Leo, S., Liborio, L., Libouban, R., Tabernero, D. L., Lopez-Delisle, L., Los, L. S., Mahmoud, A., Makunin, I., Marin, P., Mehta, S., Mok, W., Moreno, P. A., Morier-Genoud, F., Mosher, S., Müller, T., Nasr, E., Nekrutenko, A., Nelson, T. M., Oba, A. J., Ostrovsky, A., Polunina, P. V., Poterlowicz, K., Price, E. J., Price, G. R., Rasche, H., Raubenolt, B., Royaux, C., Sargent, L., Savage, M. T., Savchenko, V., Savchenko, D., Schatz, M. C., Seguineau, P., Serrano-Solano, B., Soranzo, N., Srikakulam, S. K., Suderman, K., Syme, A. E., Tangaro, M. A., Tedds, J. A., Tekman, M., Cheng (Mike) Thang, W., Thanki, A. S., Uhl, M., van den Beek, M., Varshney, D., Vessio, J., Videm, P., Von Kuster, G., Watson, G. R., Whitaker-Allen, N., Winter, U., Wolstencroft, M., Zambelli, F., Zierep, P., & Zoabi, R.
Venue
Nucleic Acids Research
Publisher
Oxford University Press (OUP)
Published
2024-05-20
Volume
52
Issue
W1
Pages
W83-W94
ISSN
  • 0305-1048 (ISSN-L)
  • 1362-4962
DOI
10.1093/nar/gkae410
OpenAlex
W4398182689
Cited by
936
References
25
FWCI
356.92
Type
journal article
Language
en
Open access
gold
Licence
creativecommons.org/licenses/by/4.0/ (vor, 1 d)
Funders
  • NIH (U41 HG006620, U24 HG010263, U24 CA231877, U01 CA253481)
  • National Science Foundation (1661497, 1758800, 2216612)
  • Horizon Europe (HORIZON-INFRA-2021-EOSC-01-04, 101057388)
  • Biodiversity, Circular Economy and Environment (BGE 101059492)
  • German Federal Ministry of Education and Research, BMBF (031 A538A de.NBI-RBC)
  • Ministry of Science, Research and the Arts Baden-Württemberg
  • Australian BioCommons
  • Australian Government
  • Bioplatforms Australia
  • Australian Research Data Commons
  • Queensland Government

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CoChat. (2026). Citation check: The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update. https://app.cochat.ai/papers/10.1093/nar/gkae410
The paper
Community, T. G., Abueg, L. A. L., Afgan, E., Allart, O., Awan, A. H., Bacon, W. A., Baker, D., Bassetti, M., Batut, B., Bernt, M., Blankenberg, D., Bombarely, A., Bretaudeau, A., Bromhead, C. J., Burke, M. L., Capon, P. K., Čech, M., Chavero-Díez, M., Chilton, J. M., . . . Zoabi, R. (2024). The Galaxy platform for accessible, reproducible, and collaborative data analyses: 2024 update. Nucleic Acids Research. https://doi.org/10.1093/nar/gkae410

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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).

Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.