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» Algorithms for phylogenetic footprinting
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BMCBI
2011
13 years 2 months ago
RAIphy: Phylogenetic classification of metagenomics samples using iterative refinement of relative abundance index profiles
Background: Computational analysis of metagenomes requires the taxonomical assignment of the genome contigs assembled from DNA reads of environmental samples. Because of the diver...
Ozkan U. Nalbantoglu, Samuel F. Way, Steven H. Hin...
APVIS
2004
13 years 8 months ago
Optimal Leaf Ordering for Two and a Half Dimensional Phylogenetic Tree Visualisation
Two and a half dimensional graph visualisation is the stacking of a set of related graphs into the third dimension to support visual comparison. A new aesthetic criterion is intro...
Tim Dwyer, Falk Schreiber
BIBE
2006
IEEE
135views Bioinformatics» more  BIBE 2006»
14 years 1 months ago
Evidence of Multiple Maximum Likelihood Points for a Phylogenetic Tree
An interesting and important, but largely ignored question associated with the ML method is whether there exists only a single maximum likelihood point for a given phylogenetic tr...
Bing Bing Zhou, Monther Tarawneh, Pinghao Wang, Da...
TKDE
2008
153views more  TKDE 2008»
13 years 7 months ago
Discovering Frequent Agreement Subtrees from Phylogenetic Data
We study a new data mining problem concerning the discovery of frequent agreement subtrees (FASTs) from a set of phylogenetic trees. A phylogenetic tree, or phylogeny, is an unorde...
Sen Zhang, Jason Tsong-Li Wang
ISBRA
2010
Springer
14 years 1 months ago
Uncovering Hidden Phylogenetic Consensus
Abstract. Many of the steps in phylogenetic reconstruction can be confounded by “rogue” taxa, taxa that cannot be placed with assurance anywhere within the tree—whose locatio...
Nicholas D. Pattengale, Krister M. Swenson, Bernar...