Data from: Testing for ancient adaptive radiations in Neotropical cichlid fishes

López-Fernández H, Arbour JH, Winemiller KO, Honeycutt RL

Date Published: December 13, 2012

DOI: http://dx.doi.org/10.5061/dryad.34621

 

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Title BEAST XML file used for dating
Description This file contains the executable XML file that generates the chronogram used in the paper as described in the methods. Output from running this file in BEAST 1.6.2 was used to generate the Maximum Clade Credibility chronogram and the set of 1000 randomly sampled posterior chronograms used in all analyses performed in the paper.
Download López_Fernandez et al BEAST XML file.xml (805.9 Kb)
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Title López-Fernández et al CichlinaeMCC chronogram
Description This file contains a Newick-formatted version of the MCC chronogram of Neotropical cichlids used in all lineage and phenotypic analyses. African, Indian and Madagascan taxa used for cichlid dating in the BEAST run have been pruned for analysis of Neotropical taxa. This file is directly readable in the relevant R packages used in the paper. This chronogram was pruned to generate trees for the clades Geophagini, Cichlasomatini and Heroini as needed for analysis presented in the paper.
Download López-Fernández et al CichlinaeMCC chronogram.phy (7.663 Kb)
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Title López-Fernández et al Cichlinae1000 chronograms
Description This file contains 1000 Newick-formatted trees of Neotropical cichlids obtained by randomly sampling the posterior distribution of trees obtained from the BEAST search performed using the XML file provided. African, Indian and Madagascan taxa used for cichlid dating in the BEAST run have been pruned for analysis of Neotropical taxa. This file is directly readable in the relevant R packages used in the paper. These chronograms were pruned to generate 1000-tree sets for the clades Geophagini, Cichlasomatini and Heroini as needed for analysis presented in the paper.
Download López-Fernández et al Cichlinae1000 chron...ms.phy (6.424 Mb)
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Title López-Fernández et al morphometric data
Description This file contains the raw values for Standard Length and 8 morphometric variables used for phenotypic analyses as described in the methods. Data are presented for each individual specimen used, providing also the museum catalog number for each specimen. See text of the paper for details of transformations and analyses.
Download López-Fernández et al morphometric data.csv (45.39 Kb)
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Title López-Fernández et al body size data
Description This file contains the untransformed maximum body size data per species used in the analyses. See text of the paper for details of analyses.
Download López-Fernández et al body size data.csv (3.875 Kb)
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When using this data, please cite the original publication:

López-Fernández H, Arbour JH, Winemiller KO, Honeycutt RL (2012) Testing for ancient adaptive radiations in Neotropical cichlid fishes. Evolution 67(5): 1321-1337. http://dx.doi.org/10.1111/evo.12038

Additionally, please cite the Dryad data package:

López-Fernández H, Arbour JH, Winemiller KO, Honeycutt RL (2012) Data from: Testing for ancient adaptive radiations in Neotropical cichlid fishes. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.34621
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