Article (Scientific journals)
COBREXA.jl: constraint-based reconstruction and exascale analysis
Kratochvil, Miroslav; Heirendt, Laurent; Wilken, St Elmo et al.
2021In Bioinformatics
Peer reviewed
 

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Abstract :
[en] COBREXA.jl is a Julia package for scalable, high-performance constraint-based reconstruction and analysis of very large-scale biological models. Its primary purpose is to facilitate the integration of modern high performance computing environments with the processing and analysis of large-scale metabolic models of challenging complexity. We report the architecture of the package, and demonstrate how the design promotes analysis scalability on several use-cases with multi-organism community models.https://doi.org/10.17881/ZKCR-BT30.Supplementary data are available at Bioinformatics online.
Research center :
- Luxembourg Centre for Systems Biomedicine (LCSB): Bioinformatics Core (R. Schneider Group)
ULHPC - University of Luxembourg: High Performance Computing
Disciplines :
Life sciences: Multidisciplinary, general & others
Author, co-author :
Kratochvil, Miroslav  ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Heirendt, Laurent   ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Wilken, St Elmo
Pusa, Taneli ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Arreckx, Sylvain
Noronha, Alberto ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB)
van Aalst, Marvin
Satagopam, Venkata ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Ebenhöh, Oliver
Schneider, Reinhard ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Trefois, Christophe ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Gu, Wei ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
 These authors have contributed equally to this work.
External co-authors :
yes
Language :
English
Title :
COBREXA.jl: constraint-based reconstruction and exascale analysis
Publication date :
2021
Journal title :
Bioinformatics
ISSN :
1367-4803
eISSN :
1367-4803
Peer reviewed :
Peer reviewed
Focus Area :
Systems Biomedicine
Name of the research project :
PerMedCoE
Funders :
CE - Commission Européenne [BE]
Available on ORBilu :
since 24 November 2021

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