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» Asymptotic classes of finite structures
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SAC
2006
ACM
13 years 7 months ago
Efficient interactive configuration of unbounded modular systems
Interactive configuration guides a user searching through a large combinatorial space of solutions to a system of constraints. We investigate a class of very expressive underlying...
Erik Roland van der Meer, Andrzej Wasowski, Henrik...
ECCC
2010
83views more  ECCC 2010»
13 years 4 months ago
Symmetric LDPC codes are not necessarily locally testable
Locally testable codes, i.e., codes where membership in the code is testable with a constant number of queries, have played a central role in complexity theory. It is well known t...
Eli Ben-Sasson, Ghid Maatouk, Amir Shpilka, Madhu ...
BMCBI
2010
189views more  BMCBI 2010»
13 years 7 months ago
Efficient parallel and out of core algorithms for constructing large bi-directed de Bruijn graphs
Background: Assembling genomic sequences from a set of overlapping reads is one of the most fundamental problems in computational biology. Algorithms addressing the assembly probl...
Vamsi Kundeti, Sanguthevar Rajasekaran, Hieu Dinh,...
ICDT
2010
ACM
141views Database» more  ICDT 2010»
13 years 11 months ago
The Complexity of Rooted Phylogeny problems
Several computational problems in phylogenetic reconstruction can be formulated as restrictions of the following general problem: given a formula in conjunctive normal form where ...
Manuel Bodirsky, Jens K. Mueller
BIRD
2008
Springer
162views Bioinformatics» more  BIRD 2008»
13 years 9 months ago
Suffix Tree Characterization of Maximal Motifs in Biological Sequences
Finding motifs in biological sequences is one of the most intriguing problems for string algorithms designers due to, on the one hand, the numerous applications of this problem in...
Maria Federico, Nadia Pisanti