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» Fixed-Parameter Algorithms in Phylogenetics
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NAR
2011
211views Computer Vision» more  NAR 2011»
14 years 2 months ago
DIMA 3.0: Domain Interaction Map
Domain Interaction MAp (DIMA, available at http:// webclu.bio.wzw.tum.de/dima) is a database of predicted and known interactions between protein domains. It integrates 5807 struct...
Qibin Luo, Philipp Pagel, Baiba Vilne, Dmitrij Fri...
SODA
2004
ACM
124views Algorithms» more  SODA 2004»
15 years 1 months ago
On contract-and-refine transformations between phylogenetic trees
The inference of evolutionary trees using approaches which attempt to solve the maximum parsimony (MP) and maximum likelihood (ML) optimization problems is a standard part of much...
Ganeshkumar Ganapathy, Vijaya Ramachandran, Tandy ...
BMCBI
2011
14 years 6 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
15 years 1 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»
15 years 5 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...