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Phylogeny inference under the general Markov model using MST-backbone
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/bies.201500058openalex-snapshot
GC‐biased gene conversion links the recombination landscape and demography to genomic base composition
inferredcites →https://doi.org/10.1002/j.1538-7305.1957.tb01515.xopenalex-snapshot
Shortest Connection Networks And Some Generalizations
inferredcites →https://doi.org/10.1002/jez.b.22565openalex-snapshot
The evolution of bacterial DNA base composition
inferredcites →https://doi.org/10.1007/0-387-28982-8openalex-snapshot
Inference in Hidden Markov Models
inferredcites →https://doi.org/10.1007/978-1-4612-2404-4openalex-snapshot
Learning from Data: Artificial Intelligence and Statistics V
inferredcites →https://doi.org/10.1007/978-1-4612-2404-4_12openalex-snapshot
Learning Bayesian Networks is NP-Complete
inferredcites →https://doi.org/10.1007/978-3-030-18174-1_12openalex-snapshot
Using INC Within Divide-and-Conquer Phylogeny Estimation
inferredcites →https://doi.org/10.1007/978-3-319-07953-0openalex-snapshot
Algorithms for Computational Biology
inferredcites →https://doi.org/10.1007/bf00178256openalex-snapshot
Estimating the pattern of nucleotide substitution
inferredcites →https://doi.org/10.1016/0165-1110(90)90019-8openalex-snapshot
Spontaneous deamination of cytosine and 5-methylcytosine residues in DNA and replacement of 5-methylcytosine residues with cytosine residues
inferredcites →https://doi.org/10.1016/0893-9659(89)90107-9openalex-snapshot
Rayleigh quotient iteration fails for nonsymmetric matrices
inferredcites →https://doi.org/10.1016/0893-9659(94)90024-8openalex-snapshot
Recovering a tree from the leaf colourations it generates under a Markov model
inferredcites →https://doi.org/10.1017/cbo9780511610684openalex-snapshot
Algebraic Statistics for Computational Biology
inferredcites →https://doi.org/10.1017/cbo9780511610684.023openalex-snapshot
Tree Construction using Singular Value Decomposition
inferredcites →https://doi.org/10.1038/ncomms12847openalex-snapshot
An experimental phylogeny to benchmark ancestral sequence reconstruction
inferredcites →https://doi.org/10.1038/nmicrobiol.2015.28openalex-snapshot
Microbial ecology: Linking omics to biogeochemistry
inferredcites →https://doi.org/10.1038/nmicrobiol.2016.48openalex-snapshot
A new view of the tree of life
inferredcites →https://doi.org/10.1073/pnas.87.12.4576openalex-snapshot
Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
inferredcites →https://doi.org/10.1073/pnas.87.24.10015openalex-snapshot
Molecular clock of viral evolution, and the neutral theory.
inferredcites →https://doi.org/10.1080/10635150490445779openalex-snapshot
Modeling Compositional Heterogeneity
inferredcites →https://doi.org/10.1089/10665270252935494openalex-snapshot
A Structural EM Algorithm for Phylogenetic Inference
inferredcites →https://doi.org/10.1089/106652702761034136openalex-snapshot
Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle
inferredcites →https://doi.org/10.1093/bioinformatics/bti798openalex-snapshot
apTreeshape: statistical analysis of phylogenetic tree shape
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/bioinformatics/bty633openalex-snapshot
ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R
inferredcites →https://doi.org/10.1093/bioinformatics/btz305openalex-snapshot
RAxML-NG: a fast, scalable and user-friendly tool for maximum likelihood phylogenetic inference
inferredcites →https://doi.org/10.1093/genetics/139.2.993openalex-snapshot
A space-time process model for the evolution of DNA sequences.
inferredcites →https://doi.org/10.1093/molbev/msaa015openalex-snapshot
IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era
inferredcites →https://doi.org/10.1093/molbev/msaa131openalex-snapshot
Corrigendum to: IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era
inferredcites →https://doi.org/10.1093/molbev/msm046openalex-snapshot
A Reversible Jump Method for Bayesian Phylogenetic Inference with a Nonhomogeneous Substitution Model
inferredcites →https://doi.org/10.1093/molbev/msr047openalex-snapshot
Dynamic Evolution of Base Composition: Causes and Consequences in Avian Phylogenomics
inferredcites →https://doi.org/10.1093/molbev/mst010openalex-snapshot
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
inferredcites →https://doi.org/10.1093/nar/gkf436openalex-snapshot
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a004069openalex-snapshot
Experimental Phylogeny of Neutrally Evolving DNA Sequences Generated by a Bifurcate Series of Nested Polymerase Chain Reactions
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040454openalex-snapshot
The neighbor-joining method: a new method for reconstructing phylogenetic trees.
inferredcites →https://doi.org/10.1093/sysbio/20.4.406openalex-snapshot
Toward Defining the Course of Evolution: Minimum Change for a Specific Tree Topology
inferredcites →https://doi.org/10.1093/sysbio/syp037openalex-snapshot
Nonstationary Evolution and Compositional Heterogeneity in Beetle Mitochondrial Phylogenomics
inferredcites →https://doi.org/10.1093/sysbio/syt039openalex-snapshot
Addressing Gene Tree Discordance and Non-Stationarity to Resolve a Multi-Locus Phylogeny of the Flatfishes (Teleostei: Pleuronectiformes)
inferredcites →https://doi.org/10.1093/sysbio/syv021openalex-snapshot
A New Hierarchy of Phylogenetic Models Consistent with Heterogeneous Substitution Rates
inferredcites →https://doi.org/10.1093/sysbio/syw021openalex-snapshot
RevBayes: Bayesian Phylogenetic Inference Using Graphical Models and an Interactive Model-Specification Language
inferredcites →https://doi.org/10.1093/sysbio/syw103openalex-snapshot
Split Scores: A Tool to Quantify Phylogenetic Signal in Genome-Scale Data
inferredcites →https://doi.org/10.1109/tcbb.2006.4openalex-snapshot
A Short Proof that Phylogenetic Tree Reconstruction by Maximum Likelihood Is Hard
inferredcites →https://doi.org/10.1109/tit.1968.1054142openalex-snapshot
Approximating discrete probability distributions with dependence trees
inferredcites →https://doi.org/10.1111/j.2517-6161.1977.tb01600.xopenalex-snapshot
Maximum Likelihood from Incomplete Data Via the EM Algorithm
inferredcites →https://doi.org/10.1145/1183907.1183909openalex-snapshot
Finding a maximum likelihood tree is hard
inferredcites →https://doi.org/10.1145/3501714.3501727openalex-snapshot
Reverend Bayes on Inference Engines: A Distributed Hierarchical Approach
inferredcites →https://doi.org/10.1186/s13015-019-0136-9openalex-snapshot
Constrained incremental tree building: new absolute fast converging phylogeny estimation methods with improved scalability and accuracy
inferredcites →https://doi.org/10.1214/ss/1177013353openalex-snapshot
Statistical Analysis of Hominoid Molecular Evolution
inferredcites →https://doi.org/10.1371/journal.pcbi.1003505openalex-snapshot
The Genealogical Population Dynamics of HIV-1 in a Large Transmission Chain: Bridging within and among Host Evolutionary Rates
inferredcites →https://doi.org/10.1371/journal.pcbi.1003537openalex-snapshot
BEAST 2: A Software Platform for Bayesian Evolutionary Analysis
inferredcites →https://doi.org/10.1371/journal.pcbi.1003716openalex-snapshot
On the Use of Human Mobility Proxies for Modeling Epidemics
inferredcites →https://doi.org/10.1371/journal.pone.0009490openalex-snapshot
FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
inferredcites →https://doi.org/10.2307/2529676openalex-snapshot
Minimum Mutation Fits to a Given Tree
inferredcites →https://doi.org/10.2807/1560-7917.es.2017.22.13.30494openalex-snapshot
GISAID: Global initiative on sharing all influenza data – from vision to reality
inferredcites →https://doi.org/10.48550/arxiv.1009.2722openalex-snapshot
Learning Latent Tree Graphical Models
inferredcites →https://doi.org/10.7155/jgaa.00447openalex-snapshot
Computing phylogenetic trees using topologically related minimum spanning trees
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1038/s12276-021-00658-zopenalex-snapshot
Mutational spectrum of SARS-CoV-2 during the global pandemic
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