salamanders: MrBayes output from analysis of Williams et al. data
In rwty: R We There Yet? Visualizing MCMC Convergence in Phylogenetics
salamanders R Documentation
MrBayes output from analysis of Williams et al. data
Description
This is the output from a MrBayes run of 25,000,000 generations using the analysis settings from the original .nex files.
Sampling is one tree per 100,000 generations. Data is from alignments of three separate sequences, two chains per alignment, each with its associated log file.
Usage
data(salamanders)
Format
A data frame with six chains (two each from three separate alignments) of 251 phylogenetic trees and associated likelihood and parameter values.
References
Study reference: Williams JS, Niedzwiecki JH, Weisrock DW (2013) Species tree reconstruction of a poorly resolved clade of salamanders (Ambystomatidae) using multiple nuclear loci. Molecular Phylogenetics and Evolution 68(3): 671-682. http://dx.doi.org/10.1016/j.ympev.2013.04.013
Dryad reference: Williams JS, Niedzwiecki JH, Weisrock DW (2013) Data from: Species tree reconstruction of a poorly resolved clade of salamanders (Ambystomatidae) using multiple nuclear loci. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.2gq14
http://datadryad.org/resource/doi:10.5061/dryad.2gq14
rwty documentation built on April 3, 2025, 9:20 p.m.
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MrBayes output from analysis of Williams et al. data
Description
This is the output from a MrBayes run of 25,000,000 generations using the analysis settings from the original .nex files. Sampling is one tree per 100,000 generations. Data is from alignments of three separate sequences, two chains per alignment, each with its associated log file.
Usage
data(salamanders)
Format
A data frame with six chains (two each from three separate alignments) of 251 phylogenetic trees and associated likelihood and parameter values.
References
Study reference: Williams JS, Niedzwiecki JH, Weisrock DW (2013) Species tree reconstruction of a poorly resolved clade of salamanders (Ambystomatidae) using multiple nuclear loci. Molecular Phylogenetics and Evolution 68(3): 671-682. http://dx.doi.org/10.1016/j.ympev.2013.04.013
Dryad reference: Williams JS, Niedzwiecki JH, Weisrock DW (2013) Data from: Species tree reconstruction of a poorly resolved clade of salamanders (Ambystomatidae) using multiple nuclear loci. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.2gq14
http://datadryad.org/resource/doi:10.5061/dryad.2gq14
R Package Documentation
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We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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