Search

Your search keyword '"Novella, Jon Ander"' showing total 5 results
Start Over Author "Novella, Jon Ander" Database OAIster
5 results on '"Novella, Jon Ander"'

1. Approaches for containerized scientific workflows in cloud environments with applications in life science

Author

Spjuth, Ola, Capuccini, Marco, Carone, Matteo, Larsson, Anders, Schaal, Wesley, Novella, Jon Ander, Stein, Oliver, Ekmefjord, Morgan, Tommaso, Paolo Di, Floden, Evan, Notredame, Cedric, Moreno, Pablo, Hellander, Andreas, Emami Khoonsari, Payam, Herman, Stephanie, Kultima, Kim, Lampa, Samuel, Spjuth, Ola, Capuccini, Marco, Carone, Matteo, Larsson, Anders, Schaal, Wesley, Novella, Jon Ander, Stein, Oliver, Ekmefjord, Morgan, Tommaso, Paolo Di, Floden, Evan, Notredame, Cedric, Moreno, Pablo, Hellander, Andreas, Emami Khoonsari, Payam, Herman, Stephanie, Kultima, Kim, and Lampa, Samuel

Abstract

Containers are gaining popularity in life science research as they provide a solution for encompassing dependencies of provisioned tools, simplify software installations for end users and offer a form of isolation between processes. Scientific workflows are ideal for chaining containers into data analysis pipelines to aid in creating reproducible analyses. In this article, we review a number of approaches to using containers as implemented in the workflow tools Nextflow, Galaxy, Pachyderm, Argo, Kubeflow, Luigi and SciPipe, when deployed in cloud environments. A particular focus is placed on the workflow tool’s interaction with the Kubernetes container orchestration framework.

Published
2021
Full Text
View/download PDF

2. On-demand virtual research environments using microservices

Author

Capuccini, Marco, Larsson, Anders, Carone, Matteo, Novella, Jon Ander, Sadawi, Noureddin, Gao, Jianliang, Toor, Salman, Spjuth, Ola, Capuccini, Marco, Larsson, Anders, Carone, Matteo, Novella, Jon Ander, Sadawi, Noureddin, Gao, Jianliang, Toor, Salman, and Spjuth, Ola

Abstract

eSSENCE

Published
2019
Full Text
View/download PDF

3. PhenoMeNal : Processing and analysis of metabolomics data in the cloud

Author

Peters, Kristian, Bradbury, James, Bergmann, Sven, Capuccini, Marco, Cascante, Marta, de Atauri, Pedro, Ebbels, Timothy M. D., Foguet, Carles, Glen, Robert, Gonzalez-Beltran, Alejandra, Günther, Ulrich L., Handakas, Evangelos, Hankemeier, Thomas, Haug, Kenneth, Herman, Stephanie, Holub, Petr, Izzo, Massimiliano, Jacob, Daniel, Johnson, David, Jourdan, Fabien, Kale, Namrata, Karaman, Ibrahim, Khalili, Bita, Emami Khoonsari, Payam, Kultima, Kim, Lampa, Samuel, Larsson, Anders, Ludwig, Christian, Moreno, Pablo, Neumann, Steffen, Novella, Jon Ander, O'Donovan, Claire, Pearce, Jake T. M., Peluso, Alina, Piras, Marco Enrico, Pireddu, Luca, Reed, Michelle A. C., Rocca-Serra, Philippe, Roger, Pierrick, Rosato, Antonio, Rueedi, Rico, Ruttkies, Christoph, Sadawi, Noureddin, Salek, Reza M., Sansone, Susanna-Assunta, Selivanov, Vitaly, Spjuth, Ola, Schober, Daniel, Thévenot, Etienne A., Tomasoni, Mattia, van Rijswijk, Merlijn, van Vliet, Michael, Viant, Mark R., Weber, Ralf J. M., Zanetti, Gianluigi, Steinbeck, Christoph, Peters, Kristian, Bradbury, James, Bergmann, Sven, Capuccini, Marco, Cascante, Marta, de Atauri, Pedro, Ebbels, Timothy M. D., Foguet, Carles, Glen, Robert, Gonzalez-Beltran, Alejandra, Günther, Ulrich L., Handakas, Evangelos, Hankemeier, Thomas, Haug, Kenneth, Herman, Stephanie, Holub, Petr, Izzo, Massimiliano, Jacob, Daniel, Johnson, David, Jourdan, Fabien, Kale, Namrata, Karaman, Ibrahim, Khalili, Bita, Emami Khoonsari, Payam, Kultima, Kim, Lampa, Samuel, Larsson, Anders, Ludwig, Christian, Moreno, Pablo, Neumann, Steffen, Novella, Jon Ander, O'Donovan, Claire, Pearce, Jake T. M., Peluso, Alina, Piras, Marco Enrico, Pireddu, Luca, Reed, Michelle A. C., Rocca-Serra, Philippe, Roger, Pierrick, Rosato, Antonio, Rueedi, Rico, Ruttkies, Christoph, Sadawi, Noureddin, Salek, Reza M., Sansone, Susanna-Assunta, Selivanov, Vitaly, Spjuth, Ola, Schober, Daniel, Thévenot, Etienne A., Tomasoni, Mattia, van Rijswijk, Merlijn, van Vliet, Michael, Viant, Mark R., Weber, Ralf J. M., Zanetti, Gianluigi, and Steinbeck, Christoph

Published
2019
Full Text
View/download PDF

4. Container-based bioinformatics with Pachyderm

Author

Novella, Jon Ander, Emami Khoonsari, Payam, Herman, Stephanie, Whitenack, Daniel, Capuccini, Marco, Burman, Joachim, Kultima, Kim, Spjuth, Ola, Novella, Jon Ander, Emami Khoonsari, Payam, Herman, Stephanie, Whitenack, Daniel, Capuccini, Marco, Burman, Joachim, Kultima, Kim, and Spjuth, Ola

Abstract

eSSENCE

Published
2019
Full Text
View/download PDF

5. On-Demand Virtual Research Environments using Microservices

Author

Capuccini, Marco, Larsson, Anders, Carone, Matteo, Novella, Jon Ander, Sadawi, Noureddin, Gao, Jianliang, Toor, Salman, Spjuth, Ola, Capuccini, Marco, Larsson, Anders, Carone, Matteo, Novella, Jon Ander, Sadawi, Noureddin, Gao, Jianliang, Toor, Salman, and Spjuth, Ola

Abstract

The computational demands for scientific applications are continuously increasing. The emergence of cloud computing has enabled on-demand resource allocation. However, relying solely on infrastructure as a service does not achieve the degree of flexibility required by the scientific community. Here we present a microservice-oriented methodology, where scientific applications run in a distributed orchestration platform as software containers, referred to as on-demand, virtual research environments. The methodology is vendor agnostic and we provide an open source implementation that supports the major cloud providers, offering scalable management of scientific pipelines. We demonstrate applicability and scalability of our methodology in life science applications, but the methodology is general and can be applied to other scientific domains.

Published
2018
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results