BUCKy: Gene tree/species tree reconciliation with Bayesian concordance analysis

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Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies (2016, methodology): “2014; Mirarab and Warnow 2015), BUCKy-population (Larget et al. 2010), GLASS (Mossel and Roch 2010), MP-EST (Liu et al.”
Integrative approaches for species delimitation in Ascomycota (2021, methodology): “The result based on the Bayesian concordance analysis suggested that this genus is composed of at least four species (Ané 2010; Sepúlveda et al.”
PhyloNetworks: A Package for Phylogenetic Networks (2017, methodology): “Gene-tree estimation error is accounted for if CFs are estimated with BUCKy (Ané et al. 2007; Larget et al. 2010), unlike if gene trees are used as input.”
Using nuclear gene data for plant phylogenetics: Progress and prospects II. Next‐gen approaches (2015, background): “The gene tree/species tree reconciliation also becomesmuchmore complex (Liu et al., 2009a, 2009b; Larget et al., 2010; Ness et al., 2011; Lemmon & Lemmon, 2013).”
Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting (2015, methodology): “BUCKy was performed on each of the 10,626 4-taxon sets.”
Error in Phylogenetic Estimation for Bushes in the Tree of Life (2013, methodology): “We note, however, that BUCKy [103] does not make assumptions regarding the source of discordance among the estimates of gene trees and that Kubatko [105] recently proposed a species tree approach that incorporates hybridization.”