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» Modular Complexity Analysis via Relative Complexity
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RECOMB
2004
Springer
14 years 8 months ago
Designing multiple simultaneous seeds for DNA similarity search
The challenge of similarity search in massive DNA sequence databases has inspired major changes in BLAST-style alignment tools, which accelerate search by inspecting only pairs of...
Yanni Sun, Jeremy Buhler
CADE
2005
Springer
14 years 8 months ago
An Algorithm for Deciding BAPA: Boolean Algebra with Presburger Arithmetic
We describe an algorithm for deciding the first-order multisorted theory BAPA, which combines 1) Boolean algebras of sets of uninterpreted elements (BA) and 2) Presburger arithmeti...
Viktor Kuncak, Huu Hai Nguyen, Martin C. Rinard
STOC
2007
ACM
137views Algorithms» more  STOC 2007»
14 years 8 months ago
Testing k-wise and almost k-wise independence
In this work, we consider the problems of testing whether a distribution over {0, 1}n is k-wise (resp. ( , k)-wise) independent using samples drawn from that distribution. For the...
Noga Alon, Alexandr Andoni, Tali Kaufman, Kevin Ma...
STOC
2006
ACM
129views Algorithms» more  STOC 2006»
14 years 8 months ago
Optimal phylogenetic reconstruction
One of the major tasks of evolutionary biology is the reconstruction of phylogenetic trees from molecular data. The evolutionary model is given by a Markov chain on the true evolu...
Constantinos Daskalakis, Elchanan Mossel, Sé...
STOC
2004
ACM
157views Algorithms» more  STOC 2004»
14 years 8 months ago
Derandomizing homomorphism testing in general groups
The main result of this paper is a near-optimal derandomization of the affine homomorphism test of Blum, Luby and Rubinfeld (Journal of Computer and System Sciences, 1993). We sho...
Amir Shpilka, Avi Wigderson