biostudies-literatureAgmon ENSFNLM NIH HHSNational Institutes of HealthPaul G. Allen Frontiers Group via an Allen Discovery Center at StanfordNIGMS NIH HHSNIGMS1972-1979https://www.ebi.ac.uk/biostudies/studies/S-EPMC8963310biostudies-literatureUnknown38(7)<h4>Motivation</h4>This article introduces Vivarium-software born of the idea that it should be as easy as possible for computational biologists to define any imaginable mechanistic model, combine it with existing models and execute them together as an integrated multiscale model. Integrative multiscale modeling confronts the complexity of biology by combining heterogeneous datasets and diverse modeling strategies into unified representations. These integrated models are then run to simulate how the hypothesized mechanisms operate as a whole. But building such models has been a labor-intensive process that requires many contributors, and they are still primarily developed on a case-by-case basis with each project starting anew. New software tools that streamline the integrative modeling efBioinformatics (Oxford, England)Vivarium: an interface and engine for integrative multiscale modeling in computational biology.PMC8963310CBET-1903477R01 LM013229R01 GM140008F32GM137464Skalnik CJCovert MWAgmon EMorrison JHSpangler RKPoole WPeirce SMfalseVivarium: an interface and engine for integrative multiscale modeling in computational biology.<h4>Motivation</h4>This article introduces Vivarium-software born of the idea that it should be as easy as possible for computational biologists to define any imaginable mechanistic model, combine it with existing models and execute them together as an integrated multiscale model. Integrative multiscale modeling confronts the complexity of biology by combining heterogeneous datasets and diverse modeling strategies into unified representations. These integrated models are then run to simulate how the hypothesized mechanisms operate as a whole. But building such models has been a labor-intensive process that requires many contributors, and they are still primarily developed on a case-by-case basis with each project starting anew. New software tools that streamline the integrative modeling ef2022-01-01T00:00:00Z2022 Mar2025-04-22T18:10:27.929Z2025-04-06T02:22:32.079ZS-EPMC89633103513483010.1093/bioinformatics/btac049