A Parallel Fish Landscape Model for Ecosystem Modeling (2009)
Dali Wang, Michael W. Berry, Eric A. Carr, Louis J. Gross
Parallelization of a landscape fish population model (ALFISH) is an important effort towards high performance Across Tropic Level System Simulation (ATLSS) on a computing grid. ALFISH models the...
On parallelization of a spatially-explicit structured ecological (2009)
Dali Wang, Michael W. Berry, Louis J. Gross, W. Berry
model for integrated ecosystem simulation
Design and Implementation of a Parallel Fish Model for (2008)
South Florida, Dali Wang, Eric A. Carr, Louis J. Gross, Michael W. Berry
A parallel, spatially explicit landscape fish population model (ALFISH) is presented hereby to model the impacts of different water management strategies in the South Florida region on the fresh...
A Parallel Fish Landscape Model A Parallel Fish Landscape Model for Ecosystem Modeling (2008)
Dali Wang, Michael W. Berry, Eric A. Carr, Louis J. Gross, Dali Wang, Michael W. Berry, ...
On behalf of:
AN ASSESSMENT OF COMPUTER SCIENCE ANIMATIONS: A CASE STUDY (2008)
Murray Browne, Sarah Lowe, Scott Wells, Michael W. Berry
Several approaches have been tried with some success in animating and visualizing computer science basics such as architecture and data representation. In a set of five online modules using...
Using Dendronal Signatures for Feature Extraction and Retrieval (2008)
Luojian Chen, Michael W. Berry, William W. Hargrove
ABSTRACT: A dendrone is a hierarchical thresholding structure that can be automatically generated from a complex image. The dendrone structure captures the connectedness of objects and subobjects...
A GISenabled Distributed Simulation Framework for Natural Resource Management (2008)
Dali Wang, Nick Buchanan, Michael W. Berry, Eric Carr, Jane E. Comiskey, Louis J. Gross
A distributed simulation framework is presented to enable natural resource managers to take advantage of both Geographic Information System (GIS) functionality and computationally intensive...
A Grid Service Module for Natural-Resource Managers (2008)
Dali Wang, Eric A. Carr, Mark R. Palmer, Michael W. Berry, Louis J. Gross
To facilitate transparent use of the high-performance Across Trophic-Level System Simulation (ATLSS) ecosystem-modeling package for natural-resource management,the authors developed a grid service...
Text Mining Approaches for Email Surveillance (2008)
Michael W. Berry, Murray Browne, David Skillicorn, ...
◮ By-product of the FERC investigation of Enron (originally contained 15 million email messages). ◮ This study used the improved corpus known as the Enron Email set, which was edited by Dr....
Gene Tree Labeling Using Nonnegative Matrix Factorization on Biomedical Literature (2008)
Kevin E. Heinrich, Michael W. Berry, Ramin Homayouni
Identifying functional groups of genes is a challenging problem for biological applications. Text mining approaches can be used to build hierarchical clusters or trees from the information in the...
Michael Berry, Michael W. Berry, Jack J. Dongarra, Jack J. Dongarra, Youngbae Kim, Youngbae Kim
In this paper, we present an algorithm for the reduction to block upper-Hessenberg form which can be used to solve the nonsymmetric eigenvalue problem on message-passing multicomputers. On such...
Journal on Scientific Computing, 21(2):782--791, 1999. (2007)
Xiaoyan Zhang, Michael W. Berry, Herbert A. Simon, Albert Ando, Aggregation Econometrica
[245] Hongyuan Zha and Horst D. Simon. On updating problems in latent semantic indexing. SIAM
Ricardo D. Fierro, Michael W. Berry
Recently, a nonlinear generalization of the singular value decomposition (SVD), called the Riemannian-SVD (R-SVD), for solving full rank total least squares problems was extended to low rank matrices...
NNMF for Image Processing (2007)
NNMF (Nonnegative Matrix Factorization) can be used to approximate high-dimensional data having nonnegative components. Lee and Seung (1999) demonstrated its use as a sum-by-parts representation of...
NNMF for Image Processing Derivation (2007)
Monopoli Italy, Michael W. Berry, Brett Bader (s, Ia National Labs, Murray Browne (tennessee, Bob Plemmons, ...
NNMF (Nonnegative Matrix Factorization) can be used to approximate high-dimensional data having nonnegative components. Lee and Seung (1999) demonstrated its use as a sum-by-parts representation of...
NNMF for Image Processing Derivation (2007)
Michael W. Berry, Brett Bader (s, Ia National Labs, Murray Browne (tennessee, Bob Plemmons, ...
NNMF (Nonnegative Matrix Factorization) can be used to approximate high-dimensional data having nonnegative components. Lee and Seung (1999) demonstrated its use as a sum-by-parts representation of...
Document clustering using nonnegative matrix factorization (2006)
Farial Shahnaz, Michael W. Berry, V. Paul Pauca, Robert J. Plemmons
A methodology for automatically identifying and clustering semantic features or topics in a heterogeneous text collection is presented. Textual data is encoded using a low rank nonnegative matrix...
Algorithms and applications for approximate nonnegative matrix factorization (2006)
Michael W. Berry, Murray Browne, Amy N. Langville, V. Paul Pauca, Robert J. Plemmons
In this paper we discuss the development and use of low-rank approximate nonnegative matrix factorization (NMF) algorithms for feature extraction and identification in the fields of text mining and...
A parallel structured ecological model for high end shared memory computers (2005)
Dali Wang, Michael W. Berry, Louis J. Gross
Abstract. This paper presents a new approach to parallelize spatiallyexplicit structured ecological models. Previous investigations have mainly focused on the use of spatial decomposition for...
A Parallel Simulation Framework for Integrated Regional Ecosystem Modeling (2005)
Dali Wang, Michael W. Berry, Eric A. Carr, E. Jane Comiskey, Louis J. Gross
1 This paper presents a general framework to utilize high performance computations in regional ecosystem simulation. First, a comprehensive modeling package is introduced to demonstrate the...
Gene clustering by Latent Semantic Indexing of MEDLINE abstracts (2005)
Homayouni, Ramin, Heinrich, Kevin, Wei, Lai, Berry, Michael W.
Motivation: A major challenge in the interpretation of high-throughput genomic data is understanding the functional associations between genes. Previously, several approaches have been described to...
Finding Functional Gene Relationships Using the Semantic Gene Organizer (2004)
Ramin Homayouni, Jens Gregor, Michael W. Berry, Anne Mayhew, Kevin Erich Heinrich
the final electronic copy of this thesis for form and content and recommend that it be ac-
A Whole Genome Phylogeny Using Truncated (2004)
Robert C. Ward, Kwai L. Wong, Michael W. Berry, Anne Mayhew, Shakhina Abdimajidovna Pulatova, Sabura Fozilova, ...
I am submitting herewith a thesis written by Shakhina Abdimajidovna Pulatova entitled “A
Computing Sparse Reduced-Rank Approximations to Sparse Matrices (2004)
Michael W. Berryy, Shakhina A. Pulatovay, G. W. Stewartz, Michael W. Berry, Shakhina A. Pulatova, G. W. Stewart
Running Title: Gene clustering by Latent Semantic Indexing (2004)
Ramin Homayouni, Kevin Heinrich, Lai Wei, Michael W. Berry
Motivation: A major challenge in interpretation of high throughput genomic data is understanding the functional associations between genes. Previously, several approaches have been described to...
Gene clustering by latent semantic indexing of MEDLINE abstracts (2004)
Homayouni, Ramin, Heinrich, Kevin, Wei, Lai, Berry, Michael W.
Motivation: A major challenge in interpretation of high throughput genomic data is understanding the functional associations between genes. Previously, several approaches have been described to...
Gene clustering by latent semantic indexing of MEDLINE abstracts (2004)
Homayouni, Ramin, Heinrich, Kevin, Wei, Lai, Berry, Michael W.
Motivation: A major challenge in interpretation of high throughput genomic data is understanding the functional associations between genes. Previously, several approaches have been described to...
Overcoming the Curse of Dimensionality in Clustering by means of the Wavelet Transform (2000)
Fionn Murtagh, Jean-luc Starck, Michael W. Berry
We use a redundant wavelet transform analysis to detect clusters in high-dimensional data spaces. We overcome Bellman's \curse of dimensionality" in such problems by (i) using some...
Overcoming the Curse of Dimensionality in Clustering by Means of the Wavelet Transform (2000)
Murtagh, Fionn, Starck, Jean-Luc, Berry, Michael W.
We use a redundant wavelet transform analysis to detect clusters in high-dimensional data spaces. We overcome Bellman's `curse of dimensionality' in such problems by (i) using some...
Matrices, vector spaces, and information retrieval (1999)
Michael W. Berry, Zlatko Drmač, R. Jessup
Abstract. The evolution of digital libraries and the Internet has dramatically transformed the processing, storage, and retrieval of information. Efforts to digitize text, images, video, and audio...
Michael W. Berry, Zlatko Drmač, Elizabeth R. Jessup
Abstract. The evolution of digital libraries and the Internet has dramatically transformed the processing, storage, and retrieval of information. Efforts to digitize text, images, video, and audio...
Large-Scale Information Retrieval with Latent Semantic Indexing (1997)
Todd A. Letsche, Michael W. Berry
. As the amount of electronic information increases, traditional lexical (or Boolean) information retrieval techniques will become less useful. Large, heterogeneous collections will be difficult to...
Low-Rank Orthogonal Decompositions for Information Retrieval Applications (1996)
Michael W. Berry, R.D. Fierro, Michael W. Berry, Ricardo D. Fierro
This paper is organized as follows. Section 2 is a review of basic concepts needed to understand LSI. Section 3 is a discussion of the low-rank ULV algorithm with particular focus on computational...
Approximating Dominant Singular Triplets of Large Sparse Matrices via Modified Moments (1996)
Sowmini Varadhan, Michael W. Berry, Gene H. Golub
this paper reflect the use of 2-cyclic iteration matrices as defined in Equation (2). The three main steps that constitute the CSI-MSVD algorithm are: 1. calculation of the CSI-iterate using...
Approximating Dominant Singular Triplets of Large Sparse Matrices via Modified Moments (1996)
Sowmini Varadhan, Michael W. Berry, Gene H. Golub
this paper reflect the use of 2-cyclic iteration matrices as defined in Equation (2). The three main steps that constitute the CSI-MSVD algorithm are: 1. calculation of the CSI-iterate using...
Computational Methods for Intelligent Information Access (1995)
Michael W. Berry, Susan T. Dumais, Todd A. Letsche
Currently, most approaches to retrieving textual materials from scientific databases depend on a lexical match between words in users ' requests and those in or assigned to documents in a...
Using Linear Algebra for Intelligent Information Retrieval (1995)
Susan T. Dumais, Michael Berry, Michael W. Berry, T. Dumais
. Currently, most approaches to retrieving textual materials from scientific databases depend on a lexical match between words in users' requests and those in or assigned to documents in a...
Using Linear Algebra for Intelligent Information Retrieval (1995)
M. W. Berry, S.T. Dumais, G.W. O'Brien, Michael W. Berry, Susan T. Dumais
. Currently, most approaches to retrieving textual materials from scientific databases depend on a lexical match between words in users' requests and those in or assigned to documents in a...
Michael Berry Jack, Michael W. Berry, Jack J. Dongarra, Youngbae Kim
In this paper, we present an algorithm for the reduction to block upper-Hessenberg form which can be used to solve the nonsymmetric eigenvalue problem on message-passing multicomputers. On such...
A Case Study of Latent Semantic Indexing (1995)
Michael W. Berry, S.T. Dumais, A.T. Shippy, Michael W. Berry, Susan T. Dumais
In this report, a study and analysis of the effectiveness of the Latent Semantic Indexing Retrieval System (LSIRS) is presented. Using a Motif-based X-Windows application, LSIRS uses the truncated...
Parallelization of the Hoshen-Kopelman Algorithm Using a Finite State Machine (1995)
Michael W. Berry, J. M. Constantin, Er Z, Michael W. Berry, Jeffrey M. Constantin
. In applications such as landscape ecology, computer modeling is used to assess habitat fragmentation and its ecological implications. Maps (2-D grids) of habitat clusters or patches are analyzed to...
Parallel Models of Animal Migration in Northern Yellowstone National Park (1995)
Ember Uziel, Yellowstone National Park, Michael W. Berry, Michael W. Berry
this paper, a parallel animal migration model (pnoyelp) was implemented on the Thinking Machines CM-5. Results were very promising with reasonable speed improvements over a previous sequential model...
Michael W. Berry, Jack J. Dongarra, Youngbae Kim
In this paper, we present an algorithm for the reduction to block upper-Hessenberg form which can be used to solve the nonsymmetric eigenvalue problem on message-passing multicomputers. On such...
The Land-Use Change Analysis System (LUCAS) for Evaluating Landscape Management Decisions (1994)
Michael W. Berry, Richard O. Flamm, Brett C. Hazen, Rhonda L. MacIntyre
Ecological dynamics in human-influenced landscapes are strongly affected by socioeconomic factors that influence land-use decision making. Incorporating these factors into a spatially-explicit...
PDS: A Performance Database Server (1994)
Michael Berry Corresponding, Michael W. Berry, Jack J. Dongarra, Brian H. Larose
The process of gathering, archiving, and distributing computer benchmark data is a cumbersome task usually performed by computer users and vendors with little coordination. Most important, there is...
PDS: A Performance Database Server (1994)
Michael W. Berry, Jack J. Dongarra, Brian H. Larose
The process of gathering, archiving, and distributing computer benchmark data is a cumbersome task usually performed by computer users and vendors with little coordination. Most important, there is...
Michael W. Berry, Jack J. Dongarra, Youngbae Kim
In this paper, we present an algorithm for the reduction to block upper-Hessenberg form which can be used to solve the nonsymmetric eigenvalue problem on message-passing multicomputers. On such...
Blocked Data Distribution for the Conjugate Gradient Algorithm on the CRAY T3D (1994)
Michael W. Berry, Charles Grassl, Vijay K. Krishna
In this paper, we present a sparse matrix-vector multiplication algorithm for massively-parallel computers such as the CRAY T3D. Performance results on a 256processor CRAY T3D are presented along...
Large Scale Sparse Singular Value Computations (1992)
. In this paper, we present four numerical methods for computing the singular value decomposition (SVD) of large sparse matrices on a multiprocessor architecture. We particularly emphasize Lanczos...
Matrix Visualization in the Design of Numerical Algorithms (1990)
Allan Tuchman, Michael W. Berry
At the heart of much scientific computing are the algorithmic kernels often found in numerical software libraries. Numerical analysts and algorithm designers can be aided by various software tools in...