John M. Fonner

Publication Activity (10 Years)

Years Active: 2014-2023
Publications (10 Years): 10

Top Topics

Virtual Screening

Cpu Implementation

Rapid Development

Top Venues

J. Chem. Inf. Model.

Publications

Tiffany Huff, Austin Darrow, Joshua Medina, Erik S. Ferlanti, James D. Carson, John M. Fonner, Sal Tijerina, Stanley J. Watowich, William J. Allen
Scalable and Reproducible Virtual Screening through an API-Integrated Workflow. PEARC (2023)
Erik S. Ferlanti, William J. Allen, Ernesto A. B. F. Lima, Yinzhi Wang, John M. Fonner
Perspectives and Experiences Supporting Containers for Research Computing at the Texas Advanced Computing Center. SC Workshops (2023)
Amit Ruhela, Stephen Lien Harrell, Richard Todd Evans, Gregory J. Zynda, John M. Fonner, Matt Vaughn, Tommy Minyard, John Cazes
Characterizing Containerized HPC Applications Performance at Petascale on CPU and GPU Architectures. ISC (2021)
Gregory J. Zynda, Shweta Gopaulakrishnan, John M. Fonner
RollingGantryCrane: Automation for unpacking containers into HPC environments. CANOPIE-HPC@SC (2021)
Joe Stubbs, Julia Looney, Marjo Poindexter, Elias Chalhoub, Gregory J. Zynda, Erik S. Ferlanti, Matthew Vaughn, John M. Fonner, Maytal Dahan
Integrating Jupyter into Research Computing Ecosystems: Challenges and Successes in Architecting JupyterHub for Collaborative Research Computing Ecosystems. PEARC (2020)
Sean B. Cleveland, Rion Dooley, David Perry, Joe Stubbs, John M. Fonner, Gwen A. Jacobs
Building Science Gateway Infrastructure in the Middle of the Pacific and Beyond: Experiences using the Agave Deployer and Agave Platform to Build Science Gateways. PEARC (2018)
Rion Dooley, Steven R. Brandt, John M. Fonner
The Agave Platform: An Open, Science-as-a-Service Platform for Digital Science. PEARC (2018)
Lucas A. Wilson, John M. Fonner, Jason Allison, Oscar Esteban, Harry Kenya, Marshall Lerner
Launcher: A simple tool for executing high throughput computing workloads. J. Open Source Softw. 2 (16) (2017)
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
VDJPipe: a pipelined tool for pre-processing immune repertoire sequencing data. BMC Bioinform. 18 (1) (2017)
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
VDJML: a file format with tools for capturing the results of inferring immune receptor rearrangements. BMC Bioinform. 17 (S-13) (2016)
Lucas A. Wilson, John M. Fonner
Launcher: A Shell-based Framework for Rapid Development of Parallel Parametric Studies. XSEDE (2014)
Richard D. LeDuc, Matthew Vaughn, John M. Fonner, Michael Sullivan, James G. Williams, Philip D. Blood, James Taylor, William Barnett
Leveraging the national cyberinfrastructure for biomedical research. J. Am. Medical Informatics Assoc. 21 (2) (2014)
Usha Viswanathan, Suzanne M. Tomlinson, John M. Fonner, Stephen A. Mock, Stanley J. Watowich
Identification of a Novel Inhibitor of Dengue Virus Protease through Use of a Virtual Screening Drug Discovery Web Portal. J. Chem. Inf. Model. 54 (10) (2014)
Matthew C. Cowperthwaite, James D. Carson, John M. Fonner, Oscar Jiao, Jawon Song, Matthew W. Vaughn
The Texas Advanced Computing Center: A complete scientific discovery environment for biomedical informatics and health science research. AMIA (2014)