Package: fastphylosig
Type: Package
Title: Fast Phylogenetic Signal Statistics
Version: 0.3.1
Authors@R: 
    person("Yin", "Wen", role = c("aut", "cre"),
           email = "wenyinsci@126.com")
Description: 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.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.1.0)
Imports: ape, parallel, Rcpp, stats
LinkingTo: Rcpp, RcppArmadillo
Suggests: caper, mvtnorm, phytools, testthat
URL: https://github.com/yinwen-ecology/fastphylosig,
        https://yinwen-ecology.github.io/fastphylosig/
BugReports: https://github.com/yinwen-ecology/fastphylosig/issues
SystemRequirements: C++17, OpenMP (optional)
Config/testthat/edition: 3
NeedsCompilation: yes
Packaged: 2026-10-16 00:33:42 UTC; wenyi
Author: Yin Wen [aut, cre]
Maintainer: Yin Wen <wenyinsci@126.com>
Repository: CRAN
Date/Publication: 2026-10-27 14:40:02 UTC
Built: R 4.6.1; x86_64-apple-darwin20; 2026-10-27 15:03:14 UTC; unix
Archs: fastphylosig.so.dSYM
