Results 51 to 60 of about 542,876 (367)

AWTY (are we there yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics

Bioinform., 2008
UNLABELLED A key element to a successful Markov chain Monte Carlo (MCMC) inference is the programming and run performance of the Markov chain.
J. Nylander, James C. Wilgenbusch, D. Warren, D. Swofford   +3 more
semanticscholar   +1 more source

The Mitochondrial Genome in Nematode Phylogenetics

Frontiers in Ecology and Evolution, 2020
In recent decades, great strides have been made using various kinds of data including molecular sequences to clarify the phylogenetic relationships of nematodes.
E. Kern, Taeho Kim, Joong-Ki Park
semanticscholar   +1 more source

Annotated check-list of Pteromalidae (Hymenoptera: Chalcidoidea) of Morocco. Part II.

Graellsia, 2021
En esta segunda parte, presentamos la subfamilia Pteromalinae en Marruecos, que incluye 86 especies pertenecientes a 50 géneros. Quince géneros y 37 especies se enumeran por primera vez en la fauna marroquí, de las cuales 9 han sido recientemente ...
Khadija Kissayi, Mircea-Dan Mitroiu, Latifa Rohi   +2 more
doaj   +1 more source

Combining morphological and genomic evidence to resolve species diversity and study speciation processes of the Pallenopsis patagonica (Pycnogonida) species complex

Frontiers in Zoology, 2019
Background Pallenopsis patagonica (Hoek, 1881) is a morphologically and genetically variable sea spider species whose taxonomic classification is challenging.
Jana S. Dömel, Till-Hendrik Macher, Lars Dietz, Sabrina Duncan, Christoph Mayer, Andrey Rozenberg, Katherine Wolcott, Florian Leese, Roland R. Melzer   +8 more
doaj   +1 more source

A Format for Phylogenetic Placements [PDF]

PLoS ONE, 2012
We have developed a unified format for phylogenetic placements, that is, mappings of environmental sequence data (e.g. short reads) into a phylogenetic tree. We are motivated to do so by the growing number of tools for computing and post-processing phylogenetic placements, and the lack of an established standard for storing them.
Frederick A. Matsen, Alexandros Stamatakis, Aaron Gallagher, Noah G. Hoffman, Noah G. Hoffman   +4 more
openaire   +6 more sources

BEAGLE 3: Improved Performance, Scaling, and Usability for a High-Performance Computing Library for Statistical Phylogenetics

Systematic Biology, 2019
BEAGLE is a high-performance likelihood-calculation library for phylogenetic inference. The BEAGLE library defines a simple, but flexible, application programming interface (API), and includes a collection of efficient implementations for calculation ...
Daniel L. Ayres, Michael P. Cummings, G. Baele, Aaron E Darling, Paul O Lewis, D. Swofford, J. Huelsenbeck, P. Lemey, A. Rambaut, M. Suchard   +9 more
semanticscholar   +1 more source

Scalable Bayesian phylogenetics

Philosophical Transactions of the Royal Society B: Biological Sciences, 2022
Recent advances in Bayesian phylogenetics offer substantial computational savings to accommodate increased genomic sampling that challenges traditional inference methods. In this review, we begin with a brief summary of the Bayesian phylogenetic framework, and then conceptualize a variety of methods to improve posterior approximations via Markov chain ...
Fisher, Alexander A., Hassler, Gabriel W., Ji, Xiang, Baele, Guy, Suchard, Marc A., Lemey, Philippe   +5 more
openaire   +4 more sources

DAMBE6: New Tools for Microbial Genomics, Phylogenetics, and Molecular Evolution

Journal of Heredity, 2017
DAMBE is a comprehensive software workbench for data analysis in molecular biology, phylogenetics, and evolution. Several important new functions have been added since version 5 of DAMBE: 1) comprehensive genomic profiling of translation initiation ...
X. Xia
semanticscholar   +1 more source

The effects of fossil taxa, hypothetical predicted ancestors, and a molecular scaffold on pseudoextinction analyses of extant placental orders.

PLoS ONE, 2021
Pseudoextinction analyses, which simulate extinction in extant taxa, use molecular phylogenetics to assess the accuracy of morphological phylogenetics. Previous pseudoextinction analyses have shown a failure of morphological phylogenetics to place some ...
Peggy L Brady, Mark S Springer
doaj   +1 more source

Phylogenomics — principles, opportunities and pitfalls of big‐data phylogenetics

Systematic Entomology, 2019
Phylogenetics is the science of reconstructing the evolutionary history of life on Earth. Traditionally, phylogenies were constructed using morphological data only, but the introduction of Sanger sequencing and PCR in the late 1970s enabled genetic ...
A. Young, J. Gillung
semanticscholar   +1 more source