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BMCBI
2010
121views more  BMCBI 2010»
15 years 1 months ago
A grammar-based distance metric enables fast and accurate clustering of large sets of 16S sequences
Background: We propose a sequence clustering algorithm and compare the partition quality and execution time of the proposed algorithm with those of a popular existing algorithm. T...
David J. Russell, Samuel F. Way, Andrew K. Benson,...
BIBE
2005
IEEE
126views Bioinformatics» more  BIBE 2005»
15 years 10 months ago
Highly Scalable and Accurate Seeds for Subsequence Alignment
We propose a method for finding seeds for the local alignment of two nucleotide sequences. Our method uses randomized algorithms to find approximate seeds. We present a dynamic ...
Abhijit Pol, Tamer Kahveci
BIOINFORMATICS
2010
127views more  BIOINFORMATICS 2010»
15 years 4 months ago
Analyzing taxonomic classification using extensible Markov models
Motivation: As next generation sequencing is rapidly adding new genomes, their correct placement in the taxonomy needs verification. However, the current methods for confirming cl...
Rao M. Kotamarti, Michael Hahsler, Douglas Raiford...
BMCBI
2010
155views more  BMCBI 2010»
15 years 4 months ago
A flexible R package for nonnegative matrix factorization
Background: Nonnegative Matrix Factorization (NMF) is an unsupervised learning technique that has been applied successfully in several fields, including signal processing, face re...
Renaud Gaujoux, Cathal Seoighe
WWW
2004
ACM
16 years 5 months ago
A method for modeling uncertainty in semantic web taxonomies
We present a method for representing and reasoning with uncertainty in RDF(S) and OWL ontologies based on Bayesian networks. Categories and Subject Descriptors: I.2.4 Artificial I...
Eero Hyvönen, Markus Holi