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pro vyhledávání: '"Ben Bettisworth"'
Autor:
Ben Bettisworth, Alexandros Stamatakis
Publikováno v:
BMC Bioinformatics, Vol 22, Iss 1, Pp 1-20 (2021)
Abstract Background In phylogenetic analysis, it is common to infer unrooted trees. However, knowing the root location is desirable for downstream analyses and interpretation. There exist several methods to recover a root, such as molecular clock ana
Externí odkaz:
https://doaj.org/article/4a9ce9ed20444c91b90d43f92b83327b
Publikováno v:
Molecular biology and evolution. 39(12)
Phylogenetic analyzes under the Maximum-Likelihood (ML) model are time and resource intensive. To adequately capture the vastness of tree space, one needs to infer multiple independent trees. On some datasets, multiple tree inferences converge to sim
Autor:
Noa Ecker, Dana Azouri, Ben Bettisworth, Alexandros Stamatakis, Yishay Mansour, Itay Mayrose, Tal Pupko
Publikováno v:
Bioinformatics (Oxford, England), 38 (Suppl. 1), i118–i124
Motivation In recent years, full-genome sequences have become increasingly available and as a result many modern phylogenetic analyses are based on very long sequences, often with over 100 000 sites. Phylogenetic reconstructions of large-scale alignm
Autor:
Alexandros Stamatakis, Ben Bettisworth
Publikováno v:
bioRxiv
The prediction of knock-out tournaments represents an area of large public interest and active academic as well as industrial research. Here, we leverage the computational analogies between calculating the so-called phylogenetic likelihood score used
Publikováno v:
bioRxiv
Terraces in phylogenetic tree space are, among other things, important for the design of tree space search strategies. While the phenomenon of phylogenetic terraces is already known for unlinked partition models on partitioned phylogenomic data sets,
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3d30af0407334b4a3392ca1d0ae5753f
Autor:
Evangelia Georgia Kostaki, Sarah Lutteropp, Dora Serdari, Alexandros Stamatakis, Dimitrios Paraskevis, Alexey M. Kozlov, Pavlos Pavlidis, Lucas Czech, Ben Bettisworth, Lukas Hübner, Pierre Barbera, Ioannis Mamais, Benoit Morel
Publikováno v:
Molecular Biology and Evolution
Molecular biology and evolution, 38 (5), 1777-1791
Molecular biology and evolution, 38 (5), 1777-1791
Numerous studies covering some aspects of SARS-CoV-2 data analyses are being published on a daily basis, including a regularly updated phylogeny on nextstrain.org. Here, we review the difficulties of inferring reliable phylogenies by example of a dat