Methods for analyzing and using quartets displayed on a collection of gene trees, primarily to make inferences about the species tree or network under the multi-species coalescent model. These include quartet hypothesis tests for the model, as developed by Mitchell et al. (2019) <doi:10.1214/19-EJS1576>, the species tree inference routines based on quartet distances of Rhodes (2019) <doi:10.1109/TCBB.2019.2917204> and Yourdkhani and Rhodes (2019), and the NANUQ algorithm for inference of level-1 species networks of Allman et al. (2019) <arXiv:1905.07050>.
| Version: | 1.0.5 |
| Depends: | R (≥ 3.2.0), ape (≥ 5.0), phangorn |
| Imports: | RandomFieldsUtils, zipfR, graphics, stats, Rdpack |
| Published: | 2019-12-16 |
| Author: | Elizabeth Allman [aut], Hector Banos [aut], Jonathan Mitchell [aut], John Rhodes [aut, cre] |
| Maintainer: | John Rhodes <j.rhodes at alaska.edu> |
| License: | MIT + file LICENSE |
| NeedsCompilation: | no |
| CRAN checks: | MSCquartets results |
| Reference manual: | MSCquartets.pdf |
| Package source: | MSCquartets_1.0.5.tar.gz |
| Windows binaries: | r-devel: MSCquartets_1.0.5.zip, r-release: MSCquartets_1.0.5.zip, r-oldrel: MSCquartets_1.0.5.zip |
| macOS binaries: | r-release: MSCquartets_1.0.5.tgz, r-oldrel: MSCquartets_1.0.5.tgz |
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