Publications by authors named "Alexandros P Stamatakis"
Article Synopsis
- - The study highlights the challenges in accurately estimating phylogenetic trees from large data sets, emphasizing the importance of precise multiple sequence alignments for effective phylogenetic analysis.
- - A new algorithm called SATé-II improves upon the previous model SATé-I by implementing a divide-and-conquer strategy that enhances speed, accuracy of alignments, and the ability to handle larger data sets.
- - It also addresses limitations of maximum likelihood methods previously used, demonstrating that treating gaps as missing data results in poor outcomes for tree and alignment optimization.
AxML: a fast program for sequential and parallel phylogenetic tree calculations based on the maximum likelihood method.
Proc IEEE Comput Soc Bioinform Conf
May 2005
Heuristics for the NP-complete problem of calculating the optimal phylogenetic tree for a set of aligned rRNA sequences based on the maximum likelihood method are computationally expensive. In most existing algorithms the tree evaluation and branch length optimization functions, calculating the likelihood value for each tree topology examined in the search space, account for the greatest part of overall computation time. This paper introduces AxML, a program derived from fastDNAml, incorporating a fast topology evaluation function.
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