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ORCIDNiall Gaffney
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Journal Articles
- 2022
[j2]Mohammed Eslami
, Amin Espah Borujeni, Hamed Eramian, Mark Weston, George Zheng, Joshua Urrutia, Carolyn Corbet, Diveena Becker, Paul Maschhoff, Katie Clowers, Alexander Cristofaro, Hamid Doost Hosseini, D. Benjamin Gordon, Yuval Dorfan, Jedediah Singer, Matthew Vaughn, Niall Gaffney, John Fonner, Joe Stubbs, Christopher A. Voigt, Enoch Yeung:
Prediction of whole-cell transcriptional response with machine learning. Bioinform. 38(2): 404-409 (2022)- 2019
- [j1]Adam Brinckman, Kyle Chard, Niall Gaffney, Mihael Hategan, Matthew B. Jones, Kacper Kowalik, Sivakumar Kulasekaran, Bertram Ludäscher, Bryce D. Mecum, Jarek Nabrzyski, Victoria Stodden, Ian J. Taylor, Matthew J. Turk, Kandace Turner:
Computing environments for reproducibility: Capturing the "Whole Tale". Future Gener. Comput. Syst. 94: 854-867 (2019)
Conference and Workshop Papers
- 2024
- [c13]Justin Drake, Niall Gaffney, Nathan Dean Freeman, Erik S. Ferlanti, John Fonner:
Human-powered AI Gym: Lessons Learned as the Test and Evaluation Team for the DARPA SHADE Program: Human-powered AI Gym. PEARC 2024: 38:1-38:5 - 2019
- [c12]Aqib Hasnain, Diveena Becker, Atsede Siba, Narendra Maheshri, Ben Gordon, Chris Voigt, Enoch Yeung, Subhrajit Sinha, Yuval Dorfan, Amin Espah Borujeni, Yongjin Park, Paul Maschhoff, Uma Saxena, Joshua Urrutia, Niall Gaffney:
A data-driven method for quantifying the impact of a genetic circuit on its host. BioCAS 2019: 1-4 - [c11]Kyle Chard, Thomas Thelen, Matthew J. Turk, Craig Willis, Niall Gaffney, Matthew B. Jones, Kacper Kowalik, Bertram Ludäscher, Timothy M. McPhillips, Jarek Nabrzyski, Victoria Stodden, Ian J. Taylor:
Application of BagIt-Serialized Research Object Bundles for Packaging and Re-Execution of Computational Analyses. eScience 2019: 514-521 - [c10]Kyle Chard, Niall Gaffney, Matthew B. Jones, Kacper Kowalik, Bertram Ludäscher, Jarek Nabrzyski, Victoria Stodden, Ian J. Taylor, Matthew J. Turk, Craig Willis:
Implementing Computational Reproducibility in the Whole Tale Environment. P-RECS@HPDC 2019: 17-22 - [c9]Kyle Chard, Niall Gaffney, Mihael Hategan, Kacper Kowalik, Bertram Ludäscher, Timothy M. McPhillips, Jarek Nabrzyski, Victoria Stodden, Ian J. Taylor, Thomas Thelen, Matthew J. Turk, Craig Willis:
Toward Enabling Reproducibility for Data-Intensive Research Using the Whole Tale Platform. PARCO 2019: 766-778 - 2018
- [c8]Niall Gaffney:
Improving Research Outcomes Leveraging Digital Libraries, Advanced Computing, and Data. JCDL 2018: 3 - 2017
- [c7]Dan Stanzione, Bill Barth, Niall Gaffney, Kelly P. Gaither, Chris Hempel, Tommy Minyard, Susan Mehringer, Eric A. Wernert, H. Tufo, Dhabaleswar K. Panda, Patricia J. Teller:
Stampede 2: The Evolution of an XSEDE Supercomputer. PEARC 2017: 15:1-15:8 - 2015
- [c6]Christopher Jordan, David Walling, Weijia Xu, Stephen A. Mock, Niall Gaffney, Dan Stanzione:
Wrangler's user environment: A software framework for management of data-intensive computing system. IEEE BigData 2015: 2479-2486 - [c5]Gregory J. Zynda, Niall Gaffney, Mehmet M. Dalkilic, Matthew W. Vaughn:
Feature frequency profiles for automatic sample identification using PySpark. PyHPC@SC 2015: 5:1-5:5 - [c4]Craig A. Stewart, Timothy M. Cockerill, Ian T. Foster, David Y. Hancock, Nirav C. Merchant, Edwin Skidmore, Daniel Stanzione, James Taylor, Steven Tuecke, George W. Turner, Matthew Vaughn, Niall I. Gaffney:
Jetstream: a self-provisioned, scalable science and engineering cloud environment. XSEDE 2015: 29:1-29:8 - 2014
- [c3]Niall Gaffney, Christopher Jordan, Tommy Minyard, Dan Stanzione:
Building Wrangler: A transformational data intensive resource for the open science community. IEEE BigData 2014: 20-22 - 2013
- [c2]Yaakoub El Khamra, Niall Gaffney, David Walling, Eric A. Wernert, Weijia Xu, Hui Zhang:
Performance evaluation of R with Intel Xeon Phi coprocessor. IEEE BigData 2013: 23-30 - 2003
- [c1]Ewa Deelman, Raymond Plante, Carl Kesselman, Gurmeet Singh, Mei-Hui Su, Gretchen Greene, Robert J. Hanisch, Niall Gaffney, Antonio Volpicelli, James Annis, Vijay Sekhri, Tamas Budavari, María A. Nieto-Santisteban, William O'Mullane, David Bohlender, Tom McGlynn, Arnold H. Rots, Olga Pevunova:
Grid-Based Galaxy Morphology Analysis for the National Virtual Observatory. SC 2003: 47
Informal and Other Publications
- 2020
- [i5]Kyle Chard, Niall Gaffney, Mihael Hategan, Kacper Kowalik, Bertram Ludäscher, Timothy M. McPhillips, Jarek Nabrzyski, Victoria Stodden, Ian J. Taylor, Thomas Thelen, Matthew J. Turk, Craig Willis:
Toward Enabling Reproducibility for Data-Intensive Research using the Whole Tale Platform. CoRR abs/2005.06087 (2020) - 2019
- [i4]William O'Mullane, Niall Gaffney, Frossie Economou, Arfon M. Smith, J. Ross Thomson, Tim Jenness:
The demise of the filesystem and multi level service architecture. CoRR abs/1907.13060 (2019) - 2018
- [i3]Adam Brinckman, Kyle Chard, Niall Gaffney, Mihael Hategan, Matthew B. Jones, Kacper Kowalik, Sivakumar Kulasekaran, Bertram Ludäscher, Bryce D. Mecum, Jarek Nabrzyski, Victoria Stodden, Ian J. Taylor, Matthew J. Turk, Kandace Turner:
Computing Environments for Reproducibility: Capturing the "Whole Tale". CoRR abs/1805.00400 (2018) - [i2]Zhao Zhang, Lei Huang, Uri Manor, Linjing Fang, Gabriele Merlo, Craig Michoski, John Cazes, Niall Gaffney:
FanStore: Enabling Efficient and Scalable I/O for Distributed Deep Learning. CoRR abs/1809.10799 (2018) - 2016
- [i1]Bertram Ludäscher, Kyle Chard, Niall Gaffney, Matthew B. Jones, Jaroslaw Nabrzyski, Victoria Stodden, Matthew J. Turk:
Capturing the "Whole Tale" of Computational Research: Reproducibility in Computing Environments. CoRR abs/1610.09958 (2016)
Coauthor Index
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