# | Title | Journal | Year | Citations |
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|
1 | MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space | Systematic Biology | 2012 | 21,601 |
2 | New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0 | Systematic Biology | 2010 | 15,775 |
3 | A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood | Systematic Biology | 2003 | 15,623 |
4 | Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7 | Systematic Biology | 2018 | 7,378 |
5 | A Rapid Bootstrap Algorithm for the RAxML Web Servers | Systematic Biology | 2008 | 6,551 |
6 | Improvement of Phylogenies after Removing Divergent and Ambiguously Aligned Blocks from Protein Sequence Alignments | Systematic Biology | 2007 | 4,640 |
7 | An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis | Systematic Biology | 1993 | 3,669 |
8 | Model Selection and Model Averaging in Phylogenetics: Advantages of Akaike Information Criterion and Bayesian Approaches Over Likelihood Ratio Tests | Systematic Biology | 2004 | 3,555 |
9 | Species Concepts and Species Delimitation | Systematic Biology | 2007 | 3,178 |
10 | An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis | Systematic Biology | 1993 | 3,020 |
11 | Gene Trees in Species Trees | Systematic Biology | 1997 | 2,558 |
12 | A Likelihood Approach to Estimating Phylogeny from Discrete Morphological Character Data | Systematic Biology | 2001 | 2,547 |
13 | Approximate Likelihood-Ratio Test for Branches: A Fast, Accurate, and Powerful Alternative | Systematic Biology | 2006 | 2,478 |
14 | An Approximately Unbiased Test of Phylogenetic Tree Selection | Systematic Biology | 2002 | 2,465 |
15 | Sequence-Based Species Delimitation for the DNA Taxonomy of Undescribed Insects | Systematic Biology | 2006 | 2,340 |
16 | Gaps as Characters in Sequence-Based Phylogenetic Analyses | Systematic Biology | 2000 | 2,339 |
17 | Procedures for the Analysis of Comparative Data Using Phylogenetically Independent Contrasts | Systematic Biology | 1992 | 2,034 |
18 | Maximum Likelihood Inference of Geographic Range Evolution by Dispersal, Local Extinction, and Cladogenesis | Systematic Biology | 2008 | 1,935 |
19 | Toward Defining the Course of Evolution: Minimum Change for a Specific Tree Topology | Systematic Biology | 1971 | 1,825 |
20 | Bayesian Phylogenetic Analysis of Combined Data | Systematic Biology | 2004 | 1,650 |
21 | Terrace Aware Data Structure for Phylogenomic Inference from Supermatrices | Systematic Biology | 2016 | 1,570 |
22 | Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks | Systematic Biology | 2012 | 1,489 |
23 | Dispersal-Vicariance Analysis: A New Approach to the Quantification of Historical Biogeography | Systematic Biology | 1997 | 1,485 |
24 | Delimiting Species Using Single-Locus Data and the Generalized Mixed Yule Coalescent Approach: A Revised Method and Evaluation on Simulated Data Sets | Systematic Biology | 2013 | 1,273 |
25 | Distinguishing Homologous from Analogous Proteins | Systematic Biology | 1970 | 1,252 |
26 | DNA Barcoding and Taxonomy in Diptera: A Tale of High Intraspecific Variability and Low Identification Success | Systematic Biology | 2006 | 1,201 |
27 | Phylogenetic Analysis of Covariance by Computer Simulation | Systematic Biology | 1993 | 1,162 |
28 | Bayesian Estimation of Ancestral Character States on Phylogenies | Systematic Biology | 2004 | 1,137 |
29 | A Successive Approximations Approach to Character Weighting | Systematic Biology | 1969 | 1,100 |
30 | Likelihood-Based Tests of Topologies in Phylogenetics | Systematic Biology | 2000 | 1,043 |
31 | Ultraconserved Elements Anchor Thousands of Genetic Markers Spanning Multiple Evolutionary Timescales | Systematic Biology | 2012 | 1,041 |
32 | Model Selection in Historical Biogeography Reveals that Founder-Event Speciation Is a Crucial Process in Island Clades | Systematic Biology | 2014 | 1,041 |
33 | Constructing a Significance Test for Incongruence | Systematic Biology | 1995 | 1,035 |
34 | The Promise of DNA Barcoding for Taxonomy | Systematic Biology | 2005 | 1,018 |
35 | Survey of Branch Support Methods Demonstrates Accuracy, Power, and Robustness of Fast Likelihood-based Approximation Schemes | Systematic Biology | 2011 | 989 |
36 | Inferring Phylogeny Despite Incomplete Lineage Sorting | Systematic Biology | 2006 | 973 |
37 | Estimating a Binary Character's Effect on Speciation and Extinction | Systematic Biology | 2007 | 964 |
38 | Cases in which Parsimony or Compatibility Methods will be Positively Misleading | Systematic Biology | 1978 | 954 |
39 | A New Statistical Approach to Geographic Variation Analysis | Systematic Biology | 1969 | 940 |
40 | The Maximum Likelihood Approach to Reconstructing Ancestral Character States of Discrete Characters on Phylogenies | Systematic Biology | 1999 | 933 |
41 | Inconsistency of Phylogenetic Estimates from Concatenated Data under Coalescence | Systematic Biology | 2007 | 926 |
42 | Quantitative Phyletics and the Evolution of Anurans | Systematic Biology | 1969 | 924 |
43 | Divergence Time and Evolutionary Rate Estimation with Multilocus Data | Systematic Biology | 2002 | 896 |
44 | Improving Marginal Likelihood Estimation for Bayesian Phylogenetic Model Selection | Systematic Biology | 2011 | 892 |
45 | Partitioning and Combining Data in Phylogenetic Analysis | Systematic Biology | 1993 | 873 |
46 | The Evolutionary Species Concept Reconsidered | Systematic Biology | 1978 | 867 |
47 | Strategies to Protect Biological Diversity and the Evolutionary Processes That Sustain It | Systematic Biology | 2002 | 852 |
48 | Increased Taxon Sampling Greatly Reduces Phylogenetic Error | Systematic Biology | 2002 | 851 |
49 | A Linear-Time Algorithm for Gaussian and Non-Gaussian Trait Evolution Models | Systematic Biology | 2014 | 834 |
50 | Frequentist Properties of Bayesian Posterior Probabilities of Phylogenetic Trees Under Simple and Complex Substitution Models | Systematic Biology | 2004 | 825 |