RECOMB '98 Proceedings of the second annual international conference on Computational molecular biology
SODA '00 Proceedings of the eleventh annual ACM-SIAM symposium on Discrete algorithms
Inferring evolutionary trees with strong combinatorial evidence
Theoretical Computer Science - computing and combinatorics
Constructing Big Trees from Short Sequences
ICALP '97 Proceedings of the 24th International Colloquium on Automata, Languages and Programming
Quartet Cleaning: Improved Algorithms and Simulations
ESA '99 Proceedings of the 7th Annual European Symposium on Algorithms
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Reconstructing evolutionary trees is an important problem in biology. A response to the computational intractability of most of the traditional criteria for inferring evolutionary tree has been a focus on new criteria, particularly quartet-based methods that seek to merge trees derived on subsets of four species from a given species-set into a tree for that entire set. Unfortunately, most of these methods are very sensitive to errors in the reconstruction of the trees for individual quartets of species. A recently-developed technique called quartet cleaning can alleviate this difficulty in certain cases by using redundant information in the complete set of quartet topologies for a given species-set to correct such errors. In this paper, we describe two new local vertex quartet cleaning algorithms which have optimal time complexity and error-correction bound, respectively. These are the first known local vertex quartet cleaning algorithms that are optimal with respect to either of these attributes.