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This data-driven phylogenetic comparative method fits stabilizing selection models to continuous trait data, building on the 'ouch' methodology of Butler and King (2004) <doi:10.1086/426002>. The main functions fit a series of Hansen models using stepwise AIC, then identify cases of convergent evolution where multiple lineages have shifted to the same adaptive peak. For more information see Ingram and Mahler (2013) <doi:10.1111/2041-210X.12034>.
| Version: | 0.6 |
| Depends: | R (≥ 2.6), ape, ouch, MASS, geiger |
| Imports: | methods, phytools |
| Suggests: | igraph |
| Published: | 2024-08-19 |
| DOI: | 10.32614/CRAN.package.surface |
| Author: | Travis Ingram [aut, cre] |
| Maintainer: | Travis Ingram <travis.ingram at otago.ac.nz> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| URL: | https://www.otago.ac.nz/ecoevotago/research/code/index.html |
| NeedsCompilation: | no |
| Citation: | surface citation info |
| In views: | Phylogenetics |
| CRAN checks: | surface results |
| Reference manual: | surface.pdf |
| Vignettes: |
Introduction to surface (source, R code) |
| Package source: | surface_0.6.tar.gz |
| Windows binaries: | r-devel: surface_0.6.zip, r-release: surface_0.6.zip, r-oldrel: surface_0.6.zip |
| macOS binaries: | r-release (arm64): surface_0.6.tgz, r-oldrel (arm64): surface_0.6.tgz, r-release (x86_64): surface_0.6.tgz, r-oldrel (x86_64): surface_0.6.tgz |
| Old sources: | surface archive |
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