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Information Technology

Computational science

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Displaying 101 - 125 of 159

A Hybrid Task Graph Scheduler for High Performance Image Processing Workflows

December 16, 2015
Author(s)
Timothy J. Blattner, Walid Keyrouz, Milton Halem, Shuvra S. Bhattacharyya, Mary C. Brady
The scalability of applications is a key requirement to improving performance in hybrid and cluster computing. Scheduling code to utilize parallelism is difficult, particularly when dealing with dependencies, memory management, data motion, and processor

Nanocatalyst shape and composition during nucleation of single-walled carbon nanotubes

December 7, 2015
Author(s)
Jose Gomez-Ballesteros, Juan Burgos, Pin A. Lin, Renu Sharma, Perla Balbuena
The dynamic evolution of nanocatalyst particle shape and carbon composition is examined through the initial stages of the single walled-carbon nanotubes chemical vapor deposition synthesis via classical reactive and ab initio molecular dynamics simulations

Scientific Software Sustainability: The Numerical Reproducibility Challenge

October 15, 2015
Author(s)
Walid Keyrouz, Michael V. Mascagni
Experimental reproducibility is a cornerstone of the scientific method. The ease of achieving its counterpart in computing, numerical reproducibility, was one of the core assumptions underpinning the growth of scientific computing over the past several

Validated Open Source Nanofiber Diameter Measurement Tool

April 30, 2015
Author(s)
Nathan A. Hotaling, Kapil Bharti, Haydn Kriel, Carl G. Simon Jr.
Despite the growing use of nanofiber scaffolds for tissue engineering applications, there is not a validated, readily available (commercial or open source) solution for rapid, automated analysis of nanofiber diameter from scanning electron microscope (SEM)

Detection and characterization of nonspecific, sparsely-populated binding modes for conformational selection in the early stages of complexation

March 18, 2015
Author(s)
Antonio Cardone, Aaron Bornstein, Harish C. Pant, Mary C. Brady, Ram D. Sriram, Sergio Hassan
A method is proposed to study protein-ligand binding in a system governed by specific and non-specific interactions. Strong associations lead to narrow conformational distributions in the proteins configuration space; weak and ultra-weak associations lead

A Semantic Framework for Modeling and Simulation of Cyber-physical Systems

December 30, 2014
Author(s)
Parastoo Delgoshaei, Mark Austin, Amanda Pertzborn
This paper describes a new semantic platform infrastructure for model-based systems engineering, requirements traceability, and system simulation and assessment of cyberphysical systems (CPSs). When fully developed this environment will support the

A Hybrid CPU-GPU System for Stitching Large Scale Optical Microscopy Images

September 12, 2014
Author(s)
Timothy Blattner, Walid Keyrouz, Joe Chalfoun, Bertrand C. Stivalet, Mary C. Brady, Shujia Zhou
Researchers in various fields are using optical microscopy to acquire very large images, 10K--200K of pixels per side. Optical microscopes acquire these images as grids of overlapping partial images (thousands of pixels per side) that are then stitched

Permanents, alpha-permanents and Sinkhorn balancing

June 28, 2014
Author(s)
F Sullivan, Isabel M. Beichl
The method of Sinkhorn balancing that starts with a non-negative square matrix and iterates to produce a related doubly stochastic matrix has been used with some success to estimate the values of the permanent in some cases of physical interest, However it

A Binomial Approximation Method for the Ising Model

May 21, 2014
Author(s)
Isabel M. Beichl, Amanda A. Streib, Noah S. Streib, Francis Sullivan
A large portion of the complexity inherent to the Ising model can be captures with a trivial amount of computation. in this work, we support this claim by defining an approximation to the partition function and other thermodynamic quantities of the Ising

Analysis for Dynamic Metrology

January 30, 2014
Author(s)
Andrew M. Dienstfrey, Paul D. Hale
Diverse measurement contexts require estimates of time varying quantities. Ideally the measurement device responds to signal variations significantly more rapidly than the modulation of the signal itself. If so, then well-developed techniques may be used

Three Years of DLMF: Web, Math & Search

August 1, 2013
Author(s)
Bruce R. Miller
DLMF was released to the public in May 2010 and is now completing its 3rd year online. As a somewhat early adopter of large-scale MathML content online, and exposing a math-aware search engine to the public, the project encountered situations distinct from

Stratified Sampling for the Ising Model: A Graph-Theoretic Approach

June 19, 2013
Author(s)
Amanda A. Streib, Noah S. Streib, Isabel M. Beichl, Francis Sullivan
We present a new approach to a classical problem in statistical physics: estimating the partition function and other thermodynamic quantities of the ferromagnetic Ising model. Markov chain Monte Carlo methods for this problem have been well-studied

A Hybrid CPU-GPU Approach to Fourier-Based Image Stitching of Optical Microscopy Images

March 3, 2013
Author(s)
Walid Keyrouz, Timothy J. Blattner, Bertrand C. Stivalet, Joe Chalfoun, Mary C. Brady, Shujia Zhou
We present a hybrid CPU-GPU approach for the Fourier-based stitching of optical microscopy images. This system achieves sub-minute stitching rates with large grids; it stitches a grid of 59x42 tiles in 26 seconds on a two-CPU (8 physical cores) & two-GPU

A Stochastic and Local Theory of Fatigue for Aging Pressure Vessels and Piping

November 4, 2012
Author(s)
Jeffrey T. Fong, Nathanael A. Heckert, James J. Filliben
We begin with a review of the fatigue design methodology for new pressure vessels and piping, based on both deterministic and stochastic approaches. We will then prove that the same methodology for estimating the remaining life of aging pressure vessels

Versus: A Framework for General Content-Based Comparisons

October 8, 2012
Author(s)
Peter Bajcsy, Antoine Vandecreme, Benjamin J. Long, Paul Khouri Saba, Joe Chalfoun, Luigi Marini, Rob Kooper, Michal Ondrejcek, Kenton McHenry, Smruti Padhy
Versus is a framework for the execution and dissemination of customizable content-based file comparison methods. Given digital objects such as files, database entries, or in-memory data structures, we are interested in establishing their proximity (i.e

Preface

September 2, 2012
Author(s)
Andrew M. Dienstfrey, Ronald F. Boisvert

Conformance of Image Features to Classifier Assumptions

July 27, 2012
Author(s)
Julien M. Amelot, Peter Bajcsy, Mary C. Brady
Cell measurements are derived frequently from the results of pixel classification and contiguous region segmentation of microscopy images. Image segmentation is accomplished by classifying image pixels based on high dimensional image features computed from
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