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bioRxiv · 10.1101/2021.06.04.447038

COBREXA.jl: constraint-based reconstruction and exascale analysis

Kratochvil, M.·Heirendt, L.·Wilken, S. E.·Pusa, T.·Arreckx, S.·Noronha, A.·van Aalst, M.·Satagopam, V. P.·Ebenhoeh, O.·Schneider, R.·Trefois, C.·Gu, W.
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Abstract

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. Availability and implementationhttps://doi.org/10.17881/ZKCR-BT30. Contactchristophe.trefois@uni.lu, wei.gu@uni.lu

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Kratochvil, M., Heirendt, L., Wilken, S. E., Pusa, T., Arreckx, S., Noronha, A., van Aalst, M., Satagopam, V. P., Ebenhoeh, O., Schneider, R., Trefois, C., Gu, W.. 2021-06-07. COBREXA.jl: constraint-based reconstruction and exascale analysis. https://doi.org/10.1101/2021.06.04.447038

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