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ASAP
1996
IEEE
96views Hardware» more  ASAP 1996»
14 years 24 days ago
Kestrel: A Programmable Array for Sequence Analysis
Kestrel is a programmable linear array processor designed for sequence analysis. Among other features, Kestrel includes an 8-bit word, a single-cycle add-and-minimize instruction, ...
Jeffrey D. Hirschberg, Richard Hughey, Kevin Karpl...
BMCBI
2008
116views more  BMCBI 2008»
13 years 8 months ago
Clustering exact matches of pairwise sequence alignments by weighted linear regression
Background: At intermediate stages of genome assembly projects, when a number of contigs have been generated and their validity needs to be verified, it is desirable to align thes...
Alvaro J. González, Li Liao
BMCBI
2010
144views more  BMCBI 2010»
13 years 8 months ago
Graph-based clustering and characterization of repetitive sequences in next-generation sequencing data
Background: The investigation of plant genome structure and evolution requires comprehensive characterization of repetitive sequences that make up the majority of higher plant nuc...
Petr Novák, Pavel Neumann, Jirí Maca...
BMCBI
2011
13 years 7 days ago
Protein alignment algorithms with an efficient backtracking routine on multiple GPUs
Background: Pairwise sequence alignment methods are widely used in biological research. The increasing number of sequences is perceived as one of the upcoming challenges for seque...
Jacek Blazewicz, Wojciech Frohmberg, Michal Kierzy...
POPL
1998
ACM
14 years 26 days ago
From System F to Typed Assembly Language
abstractions, such as closures, tuples, and user-defined abstract data types. The type system ensures that well-typed programs cannot violate these abstractions. In addition, the ...
J. Gregory Morrisett, David Walker, Karl Crary, Ne...