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Provides one-command and method-specific workflows for phylogenetic signal in continuous, binary, and categorical traits. Compiled tree-pruning algorithms implement Blomberg's K and Pagel's lambda without constructing a dense phylogenetic covariance matrix in production. Fritz and Purvis D retains separate random and Brownian null models, while categorical Delta combines discrete ancestral-state likelihoods with MCMC and permutation diagnostics. The package also provides reusable prepared trees, explicit tree/data matching, trait-wise missing-value handling, conservative tree diagnostics, bounded simulation memory, and structured timing and Monte Carlo uncertainty metadata. Methods follow Blomberg, Garland and Ives (2003) <doi:10.1111/j.0014-3820.2003.tb00285.x> for K, Pagel (1999) <doi:10.1038/44766> for lambda, Fritz and Purvis (2010) <doi:10.1111/j.1523-1739.2010.01455.x> for D, and Borges et al. (2019) <doi:10.1093/bioinformatics/bty800> for categorical Delta.
| Version: | 0.3.1 |
| Depends: | R (≥ 4.1.0) |
| Imports: | ape, parallel, Rcpp, stats |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | caper, mvtnorm, phytools, testthat |
| Published: | 2026-10-27 |
| DOI: | 10.32614/CRAN.package.fastphylosig (may not be active yet) |
| Author: | Yin Wen [aut, cre] |
| Maintainer: | Yin Wen <wenyinsci at 126.com> |
| BugReports: | https://github.com/yinwen-ecology/fastphylosig/issues |
| License: | MIT + file LICENSE |
| URL: | https://github.com/yinwen-ecology/fastphylosig, https://yinwen-ecology.github.io/fastphylosig/ |
| NeedsCompilation: | yes |
| SystemRequirements: | C++17, OpenMP (optional) |
| Materials: | README, NEWS |
| CRAN checks: | fastphylosig results |
| Reference manual: | fastphylosig.html , fastphylosig.pdf |
| Package source: | fastphylosig_0.3.1.tar.gz |
| Windows binaries: | r-devel: not available, r-release: not available, r-oldrel: not available |
| macOS binaries: | r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): not available, r-oldrel (x86_64): not available |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.