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» Fusion of Loops for Parallelism and Locality
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ICCS
2009
Springer
15 years 4 months ago
Generating Empirically Optimized Composed Matrix Kernels from MATLAB Prototypes
The development of optimized codes is time-consuming and requires extensive architecture, compiler, and language expertise, therefore, computational scientists are often forced to ...
Boyana Norris, Albert Hartono, Elizabeth R. Jessup...
FPL
2008
Springer
150views Hardware» more  FPL 2008»
14 years 11 months ago
Compiler generated systolic arrays for wavefront algorithm acceleration on FPGAs
Wavefront algorithms, such as the Smith-Waterman algorithm, are commonly used in bioinformatics for exact local and global sequence alignment. These algorithms are highly computat...
Betul Buyukkurt, Walid A. Najjar
BMCBI
2010
109views more  BMCBI 2010»
14 years 9 months ago
FPGA acceleration of the phylogenetic likelihood function for Bayesian MCMC inference methods
Background: Likelihood (ML)-based phylogenetic inference has become a popular method for estimating the evolutionary relationships among species based on genomic sequence data. Th...
Stephanie Zierke, Jason D. Bakos
SC
2003
ACM
15 years 2 months ago
Identifying and Exploiting Spatial Regularity in Data Memory References
The growing processor/memory performance gap causes the performance of many codes to be limited by memory accesses. If known to exist in an application, strided memory accesses fo...
Tushar Mohan, Bronis R. de Supinski, Sally A. McKe...
CC
2006
Springer
124views System Software» more  CC 2006»
15 years 1 months ago
Polyhedral Code Generation in the Real World
The polyhedral model is known to be a powerful framework to reason about high level loop transformations. Recent developments in optimizing compilers broke some generally accepted ...
Nicolas Vasilache, Cédric Bastoul, Albert C...