Data from: Large-scale phylogeny of chameleons suggests African origins and rapid Eocene radiation

Tolley KA, Townsend TM, Vences M

Date Published: April 11, 2013

DOI: http://dx.doi.org/10.5061/dryad.11350

 

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Title BEAST tree 6 genes Calumma+Furcifer constrained
Downloaded 50 times
Description Time-calibrated BEAST output tree of all taxa studied (6 genes), monophyly of large Madagascar chameleons constrained (Calumma+Furcifer).
Download 0allcham_expOut20120319NoIntSum.trees (228.2 Kb)
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Title MrBayes tree 6 genes Calumma+Furcifer constrained
Downloaded 39 times
Description Bayesian Inference phylogenetic tree of all taxa studied (6 genes, calculated with MrBayes (50% majority rule consensus), partition by gene, monophyly of large Madagascar chameleons constrained (Calumma+Furcifer).
Download allcham_expOut20120319NoIntMadMonoB.con (22.14 Kb)
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Title ML tree, Calumma+Furcifer constrained
Downloaded 28 times
Description Maximum Likelihood tree of all taxa studied (6 genes, partition by genes), monophyly of large Madagascar chameleons constrained (Calumma+Furcifer).
Download allcham_expOut2NoInt_MadMonoConstraint_byg...trees (16.75 Kb)
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Title MrBayes tree, 13 genes
Downloaded 30 times
Description Bayesian Inference phylogenetic tree (50% majority rule consensus), reduced taxon sets, 13 genes, no topological constraints.
Download ChamsReduced_13genesMB_20110229MBcon.trees (5.474 Kb)
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Title BEAST tree, 13 genes
Downloaded 22 times
Description BEAST output tree, time calibrated, no topological constraints, 13 genes / reduced set of taxa
Download ChamsReduced_13geneBEASTinputNoInt5sum.trees (59.36 Kb)
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Title ML tree, 13 genes
Downloaded 18 times
Description Maximum Likelihood tree, reduced taxon sets, 13 genes, no topological constraints.
Download ChamsRed_13genesIncD_20110229MLboot.trees (4.099 Kb)
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Title ML tree, 6 genes, no topological constraint
Downloaded 25 times
Description Maximum Likelihood tree, 6-gene data set, all taxa, partition by gene, no topological constraint.
Download allcham_expOut2NoInt_MLbygene_a_boot.trees (16.75 Kb)
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Title BEAST tree, 6 genes, Calumma+Furcifer and position of Rampholeon constrained
Downloaded 23 times
Description Time calibrated BEAST tree, 6 genes, topological constraints enforced: Calumma+Furcifer and position of Rhampholeon as in 13-gene analysis.
Download allcham_expOut20120319NoInt3sum.trees (224.3 Kb)
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Title MrBayes tree 6 genes, no topological constraint
Downloaded 24 times
Description Bayesian Inference phylogenetic tree (50% majority rule consensus) calculated with MrBayes, partitioned analysis by gene, 6 genes, all taxa included, no topological constraint.
Download allcham_expOut20120319con.trees (22.11 Kb)
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Title BEAST tree, 6 genes, Calumma+Furcifer constrained, partitioned by Codon
Downloaded 26 times
Description Time calibrated BEAST tree, 6 genes, Calumma+Furcifer constrained, partitioning scheme by codon.
Download allchamExpOut20120319NoIntMadMono123SUM.trees (224.8 Kb)
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Title 6-gene alignment Alignment with MrBayes block
Downloaded 58 times
Description NEXUS format file of the 6-gene alignment with settings for MrBayes Bayesian Inference analysis.
Download allcham_expOut20120319.nex (1.112 Mb)
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Title 13 gene Alignment with MrBayes block
Downloaded 47 times
Description NEXUS format file of 13-gene alignment with command block incluzding settings for MrBayes Bayesian Inference phylogenetic analysis.
Download ChamsReduced_13genesMBbygene_20110229.nex (825.6 Kb)
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When using this data, please cite the original publication:

Tolley KA, Townsend TM, Vences M (2013) Large-scale phylogeny of chameleons suggests African origins and rapid Eocene radiation. Proceedings of the Royal Society B 280(1759): 20130184. http://dx.doi.org/10.1098/rspb.2013.0184

Additionally, please cite the Dryad data package:

Tolley KA, Townsend TM, Vences M (2013) Data from: Large-scale phylogeny of chameleons suggests African origins and rapid Eocene radiation. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.11350
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