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The impact of partitioning on phylogenomic accuracy

https://doi.org/10.1101/023978
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/978-1-4612-1694-0_15openalex-snapshot
Information Theory and an Extension of the Maximum Likelihood Principle
inferredcites →https://doi.org/10.1007/bf00160154openalex-snapshot
Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
inferredcites →https://doi.org/10.1007/bf01908075openalex-snapshot
Comparing partitions
inferredcites →https://doi.org/10.1016/0025-5564(81)90043-2openalex-snapshot
Comparison of phylogenetic trees
inferredcites →https://doi.org/10.1016/0169-5347(96)10041-0openalex-snapshot
Among-site rate variation and its impact on phylogenetic analyses
inferredcites →https://doi.org/10.1016/j.ajhg.2008.01.019openalex-snapshot
A Bayesian Evaluation of Human Mitochondrial Substitution Rates
inferredcites →https://doi.org/10.1016/j.gene.2008.04.002openalex-snapshot
A likelihood look at the supermatrix–supertree controversy
inferredcites →https://doi.org/10.1016/j.ympev.2005.12.014openalex-snapshot
Bayesian mixed models and the phylogeny of pitvipers (Viperidae: Serpentes)
inferredcites →https://doi.org/10.1016/j.ympev.2011.09.023openalex-snapshot
Molecular phylogeny and biogeography of Malagasy frogs of the genus Gephyromantis
inferredcites →https://doi.org/10.1016/j.ympev.2012.09.006openalex-snapshot
Empirical evaluation of partitioning schemes for phylogenetic analyses of mitogenomic data: An avian case study
inferredcites →https://doi.org/10.1016/j.ympev.2013.02.019openalex-snapshot
Searching for the optimal data partitioning strategy in mitochondrial phylogenomics: A phylogeny of Acridoidea (Insecta: Orthoptera: Caelifera) as a case study
inferredcites →https://doi.org/10.1038/nmeth.2109openalex-snapshot
jModelTest 2: more models, new heuristics and parallel computing
inferredcites →https://doi.org/10.1080/01621459.1971.10482356openalex-snapshot
Objective Criteria for the Evaluation of Clustering Methods
inferredcites →https://doi.org/10.1080/03610927808827599openalex-snapshot
Further analysis of the data by Akaike's information criterion and the finite corrections
inferredcites →https://doi.org/10.1080/10635150390235494openalex-snapshot
Performance-Based Selection of Likelihood Models for Phylogeny Estimation
inferredcites →https://doi.org/10.1080/10635150390235520openalex-snapshot
A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
inferredcites →https://doi.org/10.1080/10635150390238879openalex-snapshot
Hierarchical Phylogenetic Models for Analyzing Multipartite Sequence Data
inferredcites →https://doi.org/10.1080/10635150490264699openalex-snapshot
Bayesian Phylogenetic Analysis of Combined Data
inferredcites →https://doi.org/10.1080/10635150490468675openalex-snapshot
A Phylogenetic Mixture Model for Detecting Pattern-Heterogeneity in Gene Sequence or Character-State Data
inferredcites →https://doi.org/10.1080/10635150590946808openalex-snapshot
Partitioned Bayesian Analyses, Partition Choice, and the Phylogenetic Relationships of Scincid Lizards
inferredcites →https://doi.org/10.1080/10635150701546249openalex-snapshot
The Importance of Data Partitioning and the Utility of Bayes Factors in Bayesian Phylogenetics
inferredcites →https://doi.org/10.1080/10635150701656360openalex-snapshot
Phylogenetic Systematics and Biogeography of Hummingbirds: Bayesian and Maximum Likelihood Analyses of Partitioned Data and Selection of an Appropriate Partitioning Strategy
inferredcites →https://doi.org/10.1080/10635150802206883openalex-snapshot
Optimal Data Partitioning and a Test Case for Ray-Finned Fishes (Actinopterygii) Based on Ten Nuclear Loci
inferredcites →https://doi.org/10.1093/bioinformatics/btg412openalex-snapshot
APE: Analyses of Phylogenetics and Evolution in R language
inferredcites →https://doi.org/10.1093/bioinformatics/btl446openalex-snapshot
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
inferredcites →https://doi.org/10.1093/gbe/evr080openalex-snapshot
Genome-Wide Heterogeneity of Nucleotide Substitution Model Fit
inferredcites →https://doi.org/10.1093/molbev/msh112openalex-snapshot
A Bayesian Mixture Model for Across-Site Heterogeneities in the Amino-Acid Replacement Process
inferredcites →https://doi.org/10.1093/molbev/msj021openalex-snapshot
Choosing Appropriate Substitution Models for the Phylogenetic Analysis of Protein-Coding Sequences
inferredcites →https://doi.org/10.1093/molbev/msp098openalex-snapshot
INDELible: A Flexible Simulator of Biological Sequence Evolution
inferredcites →https://doi.org/10.1093/molbev/msq224openalex-snapshot
Choosing among Partition Models in Bayesian Phylogenetics
inferredcites →https://doi.org/10.1093/molbev/mss020openalex-snapshot
PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses
inferredcites →https://doi.org/10.1093/molbev/mss258openalex-snapshot
Bayesian Selection of Nucleotide Substitution Models and Their Site Assignments
inferredcites →https://doi.org/10.1093/molbev/msv026openalex-snapshot
The Effects of Partitioning on Phylogenetic Inference
inferredcites →https://doi.org/10.1093/molbev/msv097openalex-snapshot
Maximum-Likelihood Tree Estimation Using Codon Substitution Models with Multiple Partitions
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a004053openalex-snapshot
Combining Multiple Data Sets in a Likelihood Analysis: Which Models are the Best?
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040126openalex-snapshot
A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates.
inferredcites →https://doi.org/10.1093/sysbio/syq012openalex-snapshot
Phylogeny and Biogeography of Dolichoderine Ants: Effects of Data Partitioning and Relict Taxa on Historical Inference
inferredcites →https://doi.org/10.1093/sysbio/sys060openalex-snapshot
The Evolution of Pharyngognathy: A Phylogenetic and Functional Appraisal of the Pharyngeal Jaw Key Innovation in Labroid Fishes and Beyond
inferredcites →https://doi.org/10.1093/sysbio/syu082openalex-snapshot
A Bayesian Supertree Model for Genome-Wide Species Tree Reconstruction
inferredcites →https://doi.org/10.1093/sysbio/syu084openalex-snapshot
The Phylogenetic Likelihood Library
inferredcites →https://doi.org/10.1126/science.1157704openalex-snapshot
A Phylogenomic Study of Birds Reveals Their Evolutionary History
inferredcites →https://doi.org/10.1146/annurev.ecolsys.36.102003.152633openalex-snapshot
Model Selection in Phylogenetics
inferredcites →https://doi.org/10.1186/1471-2148-14-82openalex-snapshot
Selecting optimal partitioning schemes for phylogenomic datasets
inferredcites →https://doi.org/10.1186/1471-2148-7-5openalex-snapshot
Multiple differences in calling songs and other traits between solitary and gregarious Mormon crickets from allopatric mtDNA clades.
inferredcites →https://doi.org/10.1186/1471-2148-7-s1-s5openalex-snapshot
Methods for selecting fixed-effect models for heterogeneous codon evolution, with comments on their application to gene and genome data
inferredcites →https://doi.org/10.1186/s12862-015-0283-7openalex-snapshot
Automatic selection of partitioning schemes for phylogenetic analyses using iterative k-means clustering of site rates
inferredcites →https://doi.org/10.1214/aos/1176344136openalex-snapshot
Estimating the Dimension of a Model
inferredcites →https://doi.org/10.1371/journal.pone.0048990openalex-snapshot
A Phylogenomic Approach to Vertebrate Phylogeny Supports a Turtle-Archosaur Affinity and a Possible Paraphyletic Lissamphibia

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.ympev.2017.12.029openalex-snapshot
Light in the darkness: New perspective on lanternfish relationships and classification using genomic and morphological data
inferred← citeshttps://doi.org/10.1038/s41467-021-22074-7openalex-snapshot
Evidence for sponges as sister to all other animals from partitioned phylogenomics with mixture models and recoding
inferred← citeshttps://doi.org/10.1038/s41576-020-0233-0openalex-snapshot
Phylogenetic tree building in the genomic age
inferred← citeshttps://doi.org/10.1093/icb/icw070openalex-snapshot
Evolution of Venomous Cartilaginous and Ray-Finned Fishes
inferred← citeshttps://doi.org/10.1093/molbev/msae264openalex-snapshot
MixtureFinder: Estimating DNA Mixture Models for Phylogenetic Analyses
inferred← citeshttps://doi.org/10.1093/sysbio/syac003openalex-snapshot
Comparing Partitioned Models to Mixture Models: Do Information Criteria Apply?
inferred← citeshttps://doi.org/10.1093/sysbio/syac081openalex-snapshot
Performance of Akaike Information Criterion and Bayesian Information Criterion in Selecting Partition Models and Mixture Models
inferred← citeshttps://doi.org/10.1093/sysbio/syw084openalex-snapshot
Who Let the CAT Out of the Bag? Accurately Dealing with Substitutional Heterogeneity in Phylogenomic Analyses
inferred← citeshttps://doi.org/10.1093/sysbio/syx070openalex-snapshot
Conflicting Evolutionary Histories of the Mitochondrial and Nuclear Genomes in New World Myotis Bats
inferred← citeshttps://doi.org/10.1093/sysbio/syz019openalex-snapshot
Whole-Genome Analyses Resolve the Phylogeny of Flightless Birds (Palaeognathae) in the Presence of an Empirical Anomaly Zone
inferred← citeshttps://doi.org/10.1101/086298openalex-snapshot
Anchored Phylogenomics of Angiosperms I: Assessing the Robustness of Phylogenetic Estimates
inferred← citeshttps://doi.org/10.31390/gradschool_dissertations.4146openalex-snapshot
Sweetpotato Virus C and Its Contribution to the Potyvirus Complex in Sweetpotato (Ipomoea batatas)
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