Parsimony analysis of phylogenomic datasets (I): scripts and guidelines for using TNT (Tree Analysis using New Technology)
出版年份 2021 全文链接
标题
Parsimony analysis of phylogenomic datasets (I): scripts and guidelines for using TNT (Tree Analysis using New Technology)
作者
关键词
-
出版物
CLADISTICS
Volume -, Issue -, Pages -
出版商
Wiley
发表日期
2021-07-14
DOI
10.1111/cla.12477
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- Assessing topological congruence among concatenation-based phylogenomic approaches in empirical datasets
- (2021) Ambrosio Torres et al. MOLECULAR PHYLOGENETICS AND EVOLUTION
- Parsimony analysis of phylogenomic datasets (II): evaluation of PAUP*, MEGA and MPBoot
- (2021) Pablo A. Goloboff et al. CLADISTICS
- A phylogenetic C interpreter for TNT
- (2020) Pablo A Goloboff et al. BIOINFORMATICS
- Ultra‐Conserved Elements and morphology reciprocally illuminate conflicting phylogenetic hypotheses in Chalcididae (Hymenoptera, Chalcidoidea)
- (2020) Astrid Cruaud et al. CLADISTICS
- Comparative phylogenomics reveal complex evolution of life history strategies in a clade of bivalves with parasitic larvae (Bivalvia: Unionoida: Ambleminae)
- (2020) Chase H. Smith et al. CLADISTICS
- Likelihood approximations of implied weights parsimony can be selected over the Mk model by the Akaike information criterion
- (2019) Pablo A. Goloboff et al. CLADISTICS
- Phylogenomic analysis of Calyptratae: resolving the phylogenetic relationships within a major radiation of Diptera
- (2019) Sujatha Narayanan Kutty et al. CLADISTICS
- 19 Dubious Ways to Compute the Marginal Likelihood of a Phylogenetic Tree Topology
- (2019) Mathieu Fourment et al. SYSTEMATIC BIOLOGY
- Phylogenomics — principles, opportunities and pitfalls of big‐data phylogenetics
- (2019) Andrew D. Young et al. SYSTEMATIC ENTOMOLOGY
- MPBoot: fast phylogenetic maximum parsimony tree inference and bootstrap approximation
- (2018) Diep Thi Hoang et al. BMC EVOLUTIONARY BIOLOGY
- Phylogenomic Resolution of the Phylogeny of Laurasiatherian Mammals: Exploring Phylogenetic Signals within Coding and Noncoding Sequences
- (2017) Meng-Yun Chen et al. Genome Biology and Evolution
- Restructuring higher taxonomy using broad-scale phylogenomics: The living Ophiuroidea
- (2017) Timothy D. O'Hara et al. MOLECULAR PHYLOGENETICS AND EVOLUTION
- Why Concatenation Fails Near the Anomaly Zone
- (2017) Fábio K. Mendes et al. SYSTEMATIC BIOLOGY
- Why Do Phylogenomic Data Sets Yield Conflicting Trees? Data Type Influences the Avian Tree of Life more than Taxon Sampling
- (2017) Sushma Reddy et al. SYSTEMATIC BIOLOGY
- TNT version 1.5, including a full implementation of phylogenetic morphometrics
- (2016) Pablo A. Goloboff et al. CLADISTICS
- Exploring Phylogenetic Relationships within Myriapoda and the Effects of Matrix Composition and Occupancy on Phylogenomic Reconstruction
- (2016) Rosa Fernández et al. SYSTEMATIC BIOLOGY
- Phylogenomic subsampling: a brief review
- (2016) Scott V. Edwards ZOOLOGICA SCRIPTA
- ExaML version 3: a tool for phylogenomic analyses on supercomputers
- (2015) Alexey M. Kozlov et al. BIOINFORMATICS
- Extracting phylogenetic signal and accounting for bias in whole-genome data sets supports the Ctenophora as sister to remaining Metazoa
- (2015) Marek L. Borowiec et al. BMC GENOMICS
- Identifying unstable taxa: Efficient implementation of triplet-based measures of stability, and comparison with Phyutility and RogueNaRok
- (2015) Pablo A. Goloboff et al. MOLECULAR PHYLOGENETICS AND EVOLUTION
- A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing
- (2015) Richard O. Prum et al. NATURE
- A phylogenomic analysis of the role and timing of molecular adaptation in the aquatic transition of cetartiodactyl mammals
- (2015) Georgia Tsagkogeorga et al. Royal Society Open Science
- ASTRAL: genome-scale coalescent-based species tree estimation
- (2014) S. Mirarab et al. BIOINFORMATICS
- Novel Information Theory-Based Measures for Quantifying Incongruence among Phylogenetic Trees
- (2014) Leonidas Salichos et al. MOLECULAR BIOLOGY AND EVOLUTION
- A confounding effect of missing data on character conflict in maximum likelihood and Bayesian MCMC phylogenetic analyses
- (2014) Mark P. Simmons MOLECULAR PHYLOGENETICS AND EVOLUTION
- Extended implied weighting
- (2013) Pablo A. Goloboff CLADISTICS
- Oblong, a program to analyse phylogenomic data sets with millions of characters, requiring negligible amounts of RAM
- (2013) Pablo A. Goloboff CLADISTICS
- Ultrafast Approximation for Phylogenetic Bootstrap
- (2013) B. Q. Minh et al. MOLECULAR BIOLOGY AND EVOLUTION
- Using Genes as Characters and a Parsimony Analysis to Explore the Phylogenetic Position of Turtles
- (2013) Bin Lu et al. PLoS One
- GB-to-TNT: facilitating creation of matrices from GenBank and diagnosis of results in TNT
- (2012) Pablo A. Goloboff et al. CLADISTICS
- Molecular phylogenetics: principles and practice
- (2012) Ziheng Yang et al. NATURE REVIEWS GENETICS
- Misleading results of likelihood-based phylogenetic analyses in the presence of missing data
- (2011) Mark P. Simmons CLADISTICS
- Random Addition Concatenation Analysis: A Novel Approach to the Exploration of Phylogenomic Signal Reveals Strong Agreement between Core and Shell Genomic Partitions in the Cyanobacteria
- (2011) Apurva Narechania et al. Genome Biology and Evolution
- Estimating Species Trees from Unrooted Gene Trees
- (2011) Liang Liu et al. SYSTEMATIC BIOLOGY
- Phylogenetic morphometrics (I): the use of landmark data in a phylogenetic framework
- (2010) Santiago A. Catalano et al. CLADISTICS
- Do model-based phylogenetic analyses perform better than parsimony? A test with empirical data
- (2010) Eirik Rindal et al. CLADISTICS
- Bayesian Inference of Species Trees from Multilocus Data
- (2009) J. Heled et al. MOLECULAR BIOLOGY AND EVOLUTION
- Weighting against homoplasy improves phylogenetic analysis of morphological data sets
- (2008) Pablo A. Goloboff et al. CLADISTICS
- TNT, a free program for phylogenetic analysis
- (2008) Pablo A. Goloboff et al. CLADISTICS
- Calculating SPR distances between trees
- (2007) Pablo A. Goloboff CLADISTICS
Become a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get StartedAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started