OpenMS 3 expands the frontiers of open-source computational mass spectrometry-Reference-Cited by-同舟云学术

OpenMS 3 expands the frontiers of open-source computational mass spectrometry

Published:2023-08-23 Issue: Volume: Page:
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Author:

Sachsenberg Timo¹,Pfeuffer Julianus²,Bielow Chris³^ORCID,Wein Samuel⁴,Jeong Kyowon⁵^ORCID,Netz Eugen⁴^ORCID,Walter Axel¹,Alka Oliver⁴,Nilse Lars⁶,Colaianni Pasquale⁷,McCloskey Douglas⁸,Kim Jihyung⁵,Rosenberger George⁹^ORCID,Bichmann Leon⁴^ORCID,Walzer Mathias¹⁰,Veit Johannes⁴,Boudaud Bertrand⁷,Bernt Matthias¹¹,Patikas Nikolaos¹²,Pilz Matteo⁴,Startek Michał Piotr¹³,Kutuzova Svetlana¹⁴,Heumos Lukas¹⁵,Charkow Joshua¹⁶,Sing Justin¹⁶,Feroz Ayesha⁴,Siraj Arslan⁴,Weisser Hendrik¹⁷^ORCID,Dijkstra Tjeerd¹⁸,Perez-Riverol Yasset¹⁹^ORCID,Röst Hannes¹⁶^ORCID,Kohlbacher Oliver⁵^ORCID

Affiliation:

1. Applied Bioinformatics, Department of Computer Science, University of Tuebingen, University of Tuebingen Tübingen

2. Freie Universität Berlin and Zuse Institute Berlin

3. Freie Universität Berlin

4. University of Tuebingen

5. University of Tübingen

6. University of Freiburg

7. Novo Nordisk Foundation Center for Biosustainability

8. Technical University of Denmark

9. Columbia University

10. EMBL-European Bioinformatics Institute (EMBL-EBI

11. Helmholtz Centre for Environmental Research GmbH-UFZ

12. Evergrande Center for Immunologic Diseases Harvard Medical School and Brigham and Women’s Hospital

13. University of Warsaw

14. Department of Computer Science/Novo Nordisk Foundation Center for Protein Research

15. Helmholtz Zentrum Munich and Technical University of Munich

16. University of Toronto

17. Storm Therapeutics Ltd

18. University Hospital Tübingen

19. European Bioinformatics Institute

Abstract

Abstract Mass spectrometry has become an indispensable tool in the life sciences. The new major version 3 of the computational framework OpenMS provides significant advancements regarding open, scalable, and reproducible high-throughput workflows for proteomics, metabolomics, and oligonucleotide mass spectrometry. OpenMS makes analyses from emerging fields available to experimentalists, enhances computational workflows, and provides a reworked Python interface to facilitate access for bioinformaticians and data scientists.

Publisher

Research Square Platform LLC

Reference35 articles.

1. TOPP—the OpenMS proteomics pipeline;Kohlbacher O;Bioinformatics,2007

2. TOPPView: an open-source viewer for mass spectrometry data;Sturm M;J. Proteome Res.,2009

3. The SoftWipe tool and benchmark for assessing coding standards adherence of scientific software;Zapletal A;Sci. Rep.,2021

4. OpenMS 3.0.0 documentation. https://openms.readthedocs.io/en/latest/.

5. Installation — pyOpenMS 2.8.0 documentation. https://pyopenms.readthedocs.io/en/latest/installation.html.

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