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Distribution of gene tree histories under the coalescent model with gene flow

https://doi.org/10.1101/023937
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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/s00285-010-0355-7openalex-snapshot
Identifying the rooted species tree from the distribution of unrooted gene trees under the coalescent
inferredcites →https://doi.org/10.1007/s00285-013-0671-9openalex-snapshot
Efficient computation in the IM model
inferredcites →https://doi.org/10.1016/j.jtbi.2011.08.006openalex-snapshot
Determining species tree topologies from clade probabilities under the coalescent
inferredcites →https://doi.org/10.1016/j.mbs.2011.10.006openalex-snapshot
The probability distribution of ranked gene trees on a species tree
inferredcites →https://doi.org/10.1016/j.tpb.2008.10.004openalex-snapshot
Detecting hybrid speciation in the presence of incomplete lineage sorting using gene tree incongruence: A model
inferredcites →https://doi.org/10.1016/j.tree.2009.01.009openalex-snapshot
Gene tree discordance, phylogenetic inference and the multispecies coalescent
inferredcites →https://doi.org/10.1016/j.ympev.2008.09.008openalex-snapshot
Does gene flow destroy phylogenetic signal? The performance of three methods for estimating species phylogenies in the presence of gene flow
inferredcites →https://doi.org/10.1016/j.ympev.2011.02.019openalex-snapshot
Estimating species trees using approximate Bayesian computation
inferredcites →https://doi.org/10.1016/j.ympev.2014.05.010openalex-snapshot
Do estimated and actual species phylogenies match? Evaluation of East African cichlid radiations
inferredcites →https://doi.org/10.1093/bioinformatics/13.3.235openalex-snapshot
Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees
inferredcites →https://doi.org/10.1093/bioinformatics/18.2.337openalex-snapshot
Generating samples under a Wright–Fisher neutral model of genetic variation
inferredcites →https://doi.org/10.1093/bioinformatics/btu462openalex-snapshot
ASTRAL: genome-scale coalescent-based species tree estimation
inferredcites →https://doi.org/10.1093/gbe/evt186openalex-snapshot
Comparative Species Divergence across Eight Triplets of Spiny Lizards (Sceloporus) Using Genomic Sequence Data
inferredcites →https://doi.org/10.1093/genetics/122.4.957openalex-snapshot
Gene genealogy in three related populations: consistency probability between gene and population trees.
inferredcites →https://doi.org/10.1093/molbev/msn148openalex-snapshot
Estimation of Hominoid Ancestral Population Sizes under Bayesian Coalescent Models Incorporating Mutation Rate Variation and Sequencing Errors
inferredcites →https://doi.org/10.1093/molbev/msp250openalex-snapshot
Fast and Consistent Estimation of Species Trees Using Supermatrix Rooted Triples
inferredcites →https://doi.org/10.1093/molbev/msp296openalex-snapshot
Isolation with Migration Models for More Than Two Populations
inferredcites →https://doi.org/10.1093/molbev/mss118openalex-snapshot
Maximum Likelihood Implementation of an Isolation-with-Migration Model with Three Species for Testing Speciation with Gene Flow
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040517openalex-snapshot
Relationships between gene trees and species trees.
inferredcites →https://doi.org/10.1093/sysbio/46.3.523openalex-snapshot
Gene Trees in Species Trees
inferredcites →https://doi.org/10.1093/sysbio/syp008openalex-snapshot
Properties of Consensus Methods for Inferring Species Trees from Gene Trees
inferredcites →https://doi.org/10.1093/sysbio/syp055openalex-snapshot
Identifying Hybridization Events in the Presence of Coalescence via Model Selection
inferredcites →https://doi.org/10.1093/sysbio/syq084openalex-snapshot
Coalescent Histories on Phylogenetic Networks and Detection of Hybridization Despite Incomplete Lineage Sorting
inferredcites →https://doi.org/10.1093/sysbio/syr128openalex-snapshot
Is Recombination a Problem for Species-Tree Analyses?
inferredcites →https://doi.org/10.1093/sysbio/syt037openalex-snapshot
Parsimonious Inference of Hybridization in the Presence of Incomplete Lineage Sorting
inferredcites →https://doi.org/10.1111/j.1558-5646.2011.01476.xopenalex-snapshot
COALESCENT-BASED SPECIES TREE INFERENCE FROM GENE TREE TOPOLOGIES UNDER INCOMPLETE LINEAGE SORTING BY MAXIMUM LIKELIHOOD
inferredcites →https://doi.org/10.1126/science.1258524openalex-snapshot
Extensive introgression in a malaria vector species complex revealed by phylogenomics
inferredcites →https://doi.org/10.1186/1471-2148-10-302openalex-snapshot
A maximum pseudo-likelihood approach for estimating species trees under the coalescent model
inferredcites →https://doi.org/10.1186/1471-2148-11-291openalex-snapshot
Estimating hybridization in the presence of coalescence using phylogenetic intraspecific sampling
inferredcites →https://doi.org/10.1186/1471-2148-8-118openalex-snapshot
Rooted triple consensus and anomalous gene trees
inferredcites →https://doi.org/10.1371/journal.pcbi.1000501openalex-snapshot
Species Tree Inference by Minimizing Deep Coalescences
inferredcites →https://doi.org/10.1371/journal.pgen.0020068openalex-snapshot
Discordance of Species Trees with Their Most Likely Gene Trees
inferredcites →https://doi.org/10.1371/journal.pgen.1002660openalex-snapshot
The Probability of a Gene Tree Topology within a Phylogenetic Network with Applications to Hybridization Detection
inferredcites →https://doi.org/10.1371/journal.pone.0106531openalex-snapshot
TripNet: A Method for Constructing Rooted Phylogenetic Networks from Rooted Triplets
inferredcites →https://doi.org/10.1371/journal.pone.0129183openalex-snapshot
Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses
inferredcites →https://doi.org/10.1534/genetics.103.024182openalex-snapshot
Multilocus Methods for Estimating Population Sizes, Migration Rates and Divergence Time, With Applications to the Divergence of Drosophila pseudoobscura and D. persimilis
inferredcites →https://doi.org/10.1534/genetics.109.110528openalex-snapshot
Estimating Divergence Parameters With Small Samples From a Large Number of Loci
inferredcites →https://doi.org/10.1534/genetics.110.124164openalex-snapshot
On Computing the Coalescence Time Density in an Isolation-With-Migration Model With Few Samples
inferredcites →https://doi.org/10.1554/04-385openalex-snapshot
GENE TREE DISTRIBUTIONS UNDER THE COALESCENT PROCESS

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

inferred← citeshttps://doi.org/10.1093/sysbio/syy020openalex-snapshot
The Effect of Gene Flow on Coalescent-based Species-Tree Inference
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