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John M. Fonner
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2020 – today
- 2023
- [c9]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: 155-164 - [c8]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: 196-199 - 2021
- [c7]Gregory J. Zynda, Shweta Gopaulakrishnan, John M. Fonner:
RollingGantryCrane: Automation for unpacking containers into HPC environments. CANOPIE-HPC@SC 2021: 29-34 - [c6]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: 411-430 - 2020
- [c5]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: 91-98
2010 – 2019
- 2018
- [c4]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: 4:1-4:8 - [c3]Rion Dooley, Steven R. Brandt, John M. Fonner:
The Agave Platform: An Open, Science-as-a-Service Platform for Digital Science. PEARC 2018: 28:1-28:8 - 2017
- [j5]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): 448:1-448:5 (2017) - [j4]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): 289 (2017) - 2016
- [j3]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): 333 (2016) - 2014
- [j2]Richard D. LeDuc
, Matthew Vaughn
, John M. Fonner, Michael Sullivan, James G. Williams, Philip D. Blood, James Taylor
, William K. Barnett
:
Leveraging the national cyberinfrastructure for biomedical research. J. Am. Medical Informatics Assoc. 21(2): 195-199 (2014) - [j1]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): 2816-2825 (2014) - [c2]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 - [c1]Lucas A. Wilson
, John M. Fonner:
Launcher: A Shell-based Framework for Rapid Development of Parallel Parametric Studies. XSEDE 2014: 40:1-40:8
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