John M. Fonner

According to our database, John M. Fonner authored at least 14 papers between 2014 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

Scalable and Reproducible Virtual Screening through an API-Integrated Workflow.

Tiffany Huff, Austin Darrow, Joshua Medina, Erik S. Ferlanti, James D. Carson, John M. Fonner, Sal Tijerina, Stanley J. Watowich, William J. Allen

Proceedings of the Practice and Experience in Advanced Research Computing, 2023

Perspectives and Experiences Supporting Containers for Research Computing at the Texas Advanced Computing Center.

Erik S. Ferlanti, William J. Allen, Ernesto A. B. F. Lima, Yinzhi Wang, John M. Fonner

Proceedings of the SC '23 Workshops of The International Conference on High Performance Computing, 2023

2021

Characterizing Containerized HPC Applications Performance at Petascale on CPU and GPU Architectures.

Amit Ruhela, Stephen Lien Harrell, Richard Todd Evans, Gregory J. Zynda, John M. Fonner, Matt Vaughn, Tommy Minyard, John Cazes

Proceedings of the High Performance Computing - 36th International Conference, 2021

RollingGantryCrane: Automation for unpacking containers into HPC environments.

Gregory J. Zynda, Shweta Gopaulakrishnan, John M. Fonner

Proceedings of the 3rd International Workshop on Containers and New Orchestration Paradigms for Isolated Environments in HPC, 2021

2020

Integrating Jupyter into Research Computing Ecosystems: Challenges and Successes in Architecting JupyterHub for Collaborative Research Computing Ecosystems.

Joe Stubbs, Julia Looney, Marjo Poindexter, Elias Chalhoub, Gregory J. Zynda, Erik S. Ferlanti, Matthew Vaughn, John M. Fonner, Maytal Dahan

Proceedings of the PEARC '20: Practice and Experience in Advanced Research Computing, 2020

2018

The Agave Platform: An Open, Science-as-a-Service Platform for Digital Science.

Rion Dooley, Steven R. Brandt, John M. Fonner

Proceedings of the Practice and Experience on Advanced Research Computing, 2018

Building Science Gateway Infrastructure in the Middle of the Pacific and Beyond: Experiences using the Agave Deployer and Agave Platform to Build Science Gateways.

Sean B. Cleveland, Rion Dooley, David Perry, Joe Stubbs, John M. Fonner, Gwen A. Jacobs

Proceedings of the Practice and Experience on Advanced Research Computing, 2018

2017

Launcher: A simple tool for executing high throughput computing workloads.

Lucas A. Wilson, John M. Fonner, Jason Allison, Oscar Esteban, Harry Kenya, Marshall Lerner

J. Open Source Softw., 2017

VDJPipe: a pipelined tool for pre-processing immune repertoire sequencing data.

Scott Christley, Mikhail K. Levin, Inimary T. Toby, John M. Fonner, Nancy Monson, William Rounds, Florian Rubelt, Walter Scarborough, Richard H. Scheuermann, Lindsay G. Cowell

BMC Bioinform., 2017

2016

VDJML: a file format with tools for capturing the results of inferring immune receptor rearrangements.

Inimary T. Toby, Mikhail K. Levin, Edward Salinas, Scott Christley, Sanchita Bhattacharya, Felix Breden, Adam Buntzman, Brian Corrie, John M. Fonner, Namita T. Gupta, Uri Hershberg, Nishanth Marthandan, Aaron M. Rosenfeld, William Rounds, Florian Rubelt, Walter Scarborough, Jamie K. Scott, Mohamed Uduman, Jason A. Vander Heiden, Richard H. Scheuermann, Nancy Monson, Steven H. Kleinstein, Lindsay G. Cowell

BMC Bioinform., 2016

2014

Identification of a Novel Inhibitor of Dengue Virus Protease through Use of a Virtual Screening Drug Discovery Web Portal.

Usha Viswanathan, Suzanne M. Tomlinson, John M. Fonner, Stephen A. Mock, Stanley J. Watowich

J. Chem. Inf. Model., 2014

Leveraging the national cyberinfrastructure for biomedical research.

Richard D. LeDuc, Matthew Vaughn, John M. Fonner, Michael Sullivan, James G. Williams, Philip D. Blood, James Taylor, William K. Barnett

J. Am. Medical Informatics Assoc., 2014

Launcher: A Shell-based Framework for Rapid Development of Parallel Parametric Studies.

Lucas A. Wilson, John M. Fonner

Proceedings of the Annual Conference of the Extreme Science and Engineering Discovery Environment, 2014

The Texas Advanced Computing Center: A complete scientific discovery environment for biomedical informatics and health science research.

Matthew C. Cowperthwaite, James D. Carson, John M. Fonner, Oscar Jiao, Jawon Song, Matthew W. Vaughn

Proceedings of the AMIA 2014, 2014