Cargando…

ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models

ModelTest-NG is a reimplementation from scratch of jModelTest and ProtTest, two popular tools for selecting the best-fit nucleotide and amino acid substitution models, respectively. ModelTest-NG is one to two orders of magnitude faster than jModelTest and ProtTest but equally accurate and introduces...

Descripción completa

Detalles Bibliográficos
Autores principales:	Darriba, Diego, Posada, David, Kozlov, Alexey M, Stamatakis, Alexandros, Morel, Benoit, Flouri, Tomas
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2020
Materias:	Resources
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6984357/ https://www.ncbi.nlm.nih.gov/pubmed/31432070 http://dx.doi.org/10.1093/molbev/msz189

Ejemplares similares

RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference
por: Kozlov, Alexey M, et al.
Publicado: (2019)

EPA-ng: Massively Parallel Evolutionary Placement of Genetic Sequences
por: Barbera, Pierre, et al.
Publicado: (2019)

The State of Software for Evolutionary Biology
por: Darriba, Diego, et al.
Publicado: (2018)

GeneRax: A Tool for Species-Tree-Aware Maximum Likelihood-Based Gene Family Tree Inference under Gene Duplication, Transfer, and Loss
por: Morel, Benoit, et al.
Publicado: (2020)

ModelTest Server: a web-based tool for the statistical selection of models of nucleotide substitution online
por: Posada, David
Publicado: (2006)

ParGenes: a tool for massively parallel model selection and phylogenetic tree inference on thousands of genes
por: Morel, Benoit, et al.
Publicado: (2019)

Exploring parallel MPI fault tolerance mechanisms for phylogenetic inference with RAxML-NG
por: Hübner, Lukas, et al.
Publicado: (2021)

SweeD: Likelihood-Based Detection of Selective Sweeps in Thousands of Genomes
por: Pavlidis, Pavlos, et al.
Publicado: (2013)

scrapp: A tool to assess the diversity of microbial samples from phylogenetic placements
por: Barbera, Pierre, et al.
Publicado: (2020)

A Critical Review on the Use of Support Values in Tree Viewers and Bioinformatics Toolkits
por: Czech, Lucas, et al.
Publicado: (2017)

Does the choice of nucleotide substitution models matter topologically?
por: Hoff, Michael, et al.
Publicado: (2016)

A scalable, clinically severe pig model for Duchenne muscular dystrophy
por: Stirm, Michael, et al.
Publicado: (2021)

Lagrange-NG: The next generation of Lagrange
por: Bettisworth, Ben, et al.
Publicado: (2023)

Adaptive RAxML-NG: Accelerating Phylogenetic Inference under Maximum Likelihood using Dataset Difficulty
por: Togkousidis, Anastasis, et al.
Publicado: (2023)

Scalable generation of sensory neurons from human pluripotent stem cells
por: Deng, Tao, et al.
Publicado: (2023)

SNAPPy: A snakemake pipeline for scalable HIV-1 subtyping by phylogenetic pairing
por: Araújo, Pedro M M, et al.
Publicado: (2019)

jmodeltest.org: selection of nucleotide substitution models on the cloud
por: Santorum, Jose Manuel, et al.
Publicado: (2014)

NetRAX: accurate and fast maximum likelihood phylogenetic network inference
por: Lutteropp, Sarah, et al.
Publicado: (2022)

Controlling Expansion and Cardiomyogenic Differentiation of Human Pluripotent Stem Cells in Scalable Suspension Culture
por: Kempf, Henning, et al.
Publicado: (2014)

Differentiation of Human Pluripotent Stem Cells into Functional Endothelial Cells in Scalable Suspension Culture
por: Olmer, Ruth, et al.
Publicado: (2018)

A Semi-automated and Scalable 3D Spheroid Assay to Study Neuroblast Migration
por: Ducker, Martin, et al.
Publicado: (2020)

mNG-tagged fusion proteins and nanobodies to visualize tropomyosins in yeast and mammalian cells
por: Hatano, Tomoyuki, et al.
Publicado: (2022)

CellPhy: accurate and fast probabilistic inference of single-cell phylogenies from scDNA-seq data
por: Kozlov, Alexey, et al.
Publicado: (2022)

Development of a scalable method to isolate subsets of stem cell-derived pancreatic islet cells
por: Parent, Audrey V., et al.
Publicado: (2022)

Genetic tool development in marine protists: emerging model organisms for experimental cell biology
por: Faktorová, Drahomíra, et al.
Publicado: (2020)

CellCoal: Coalescent Simulation of Single-Cell Sequencing Samples
por: Posada, David
Publicado: (2020)

Scalable RT‐LAMP‐based SARS‐CoV‐2 testing for infection surveillance with applications in pandemic preparedness
por: Lou, Dan, et al.
Publicado: (2023)

Defined and Scalable Differentiation of Human Oligodendrocyte Precursors from Pluripotent Stem Cells in a 3D Culture System
por: Rodrigues, Gonçalo M.C., et al.
Publicado: (2017)

ExaML version 3: a tool for phylogenomic analyses on supercomputers
por: Kozlov, Alexey M., et al.
Publicado: (2015)

SMS: Smart Model Selection in PhyML
por: Lefort, Vincent, et al.
Publicado: (2017)

MEGA11: Molecular Evolutionary Genetics Analysis Version 11
por: Tamura, Koichiro, et al.
Publicado: (2021)

Coelacanth genomes reveal signatures for evolutionary transition from water to land
por: Nikaido, Masato, et al.
Publicado: (2013)

Murine iPSC-Derived Macrophages as a Tool for Disease Modeling of Hereditary Pulmonary Alveolar Proteinosis due to Csf2rb Deficiency
por: Mucci, Adele, et al.
Publicado: (2016)

Evolutionary Interrogation of Human Biology in Well-Annotated Genomic Framework of Rhesus Macaque
por: Zhang, Shi-Jian, et al.
Publicado: (2014)

The interactome of KRAB zinc finger proteins reveals the evolutionary history of their functional diversification
por: Helleboid, Pierre‐Yves, et al.
Publicado: (2019)

Prediction of effector protein structures from fungal phytopathogens enables evolutionary analyses
por: Seong, Kyungyong, et al.
Publicado: (2023)

CodABC: A Computational Framework to Coestimate Recombination, Substitution, and Molecular Adaptation Rates by Approximate Bayesian Computation
por: Arenas, Miguel, et al.
Publicado: (2015)

PEAR: a fast and accurate Illumina Paired-End reAd mergeR
por: Zhang, Jiajie, et al.
Publicado: (2014)

ORTHOSCOPE: An Automatic Web Tool for Phylogenetically Inferring Bilaterian Orthogroups with User-Selected Taxa
por: Inoue, Jun, et al.
Publicado: (2019)

Decisive Data Sets in Phylogenomics: Lessons from Studies on the Phylogenetic Relationships of Primarily Wingless Insects
por: Dell’Ampio, Emiliano, et al.
Publicado: (2014)

Cannot write session to /tmp/vufind_sessions/sess_kf35smh5ao27pg35d3tvn6833l