Package: ShiVa
Type: Package
Title: Detection of Evolutionary Shifts in Both Optimal Value and
        Variance
Version: 1.0.2
Authors@R: 
    c(person("Wensha", "Zhang", email = "wn209685@dal.ca", role = c("aut", "cre")),
      person("Lam Si Tung", "Ho", email = "Lam.Ho@dal.ca", role = "aut"),
      person("Toby", "Kenney", email = "tb432381@dal.ca", role = "aut"))
Description: Implements statistical methods for detecting evolutionary shifts
    in both the optimal trait value (mean) and evolutionary diffusion variance.
    The method uses an L1-penalized optimization framework to identify branches 
    where shifts occur, and the shift magnitudes. It also supports the 
    inclusion of measurement error. For more details, see Zhang, Ho, and Kenney (2023) <doi:10.48550/arXiv.2312.17480>.
License: GPL (>= 3)
Encoding: UTF-8
Depends: R (>= 3.6.0)
Imports: glmnet, psych, ape, phylolm, MASS, igraph
Suggests: knitr, rmarkdown
VignetteBuilder: knitr
RoxygenNote: 7.3.2
NeedsCompilation: no
Packaged: 2025-08-21 17:55:47 UTC; 64176
Author: Wensha Zhang [aut, cre],
  Lam Si Tung Ho [aut],
  Toby Kenney [aut]
Maintainer: Wensha Zhang <wn209685@dal.ca>
Repository: CRAN
Date/Publication: 2025-08-22 06:40:07 UTC
Built: R 4.6.0; ; 2026-04-26 10:20:33 UTC; unix
