Fixed numerical stability in ppg_esim tests where
eigen() could return complex values on certain hardware
architectures (e.g., macOS ARM64).
Added automated documentation spell-checking via the
spelling package in a dedicated GitHub Actions
workflow.
Expanded the GitHub Actions CI matrix to 17 runners, mirroring all
official CRAN check flavors.
selection.index 2.0.0
Breaking changes
All primary user-facing functions have transitioned from
dot-notation to snake_case notation for better clarity and to avoid S3
method dispatch conflicts.
phen.varcov() is now phen_varcov()
gen.varcov() is now gen_varcov()
weight.mat() is now weight_mat()
gen.advance() is now gen_advance()
The base combinatorial selection functions have been replaced with
the dedicated lpsi() function (Linear Phenotypic Selection
Index).
Major changes
The variance-covariance calculation engine, system solvers, and
combinatorial index builders are now fully powered by Rcpp
and RcppEigen.
Index evaluations for large trait configurations are now
exponentially faster due to primitive matrix operations.
New features
Introduced new suites for evaluating linear genomic selection
indices (lgsi()) and combining genomic/phenotypic data
(ppg_lgsi()).
Introduced new modules for tracking continuous index performance
across multiple stages of breeding trials (mlpsi(),
mlgsi()).
Implemented specialized solvers to maximize genetic advance while
specifically constraining genetic gain for restrictive/undesired traits
to zero (rlpsi(), dg_lpsi()).
Adopted Eigen-decomposition based selection methods for phenotypic
(esim()) and genomic (gesim())
evaluations.
Added specialized infrastructure for evaluating linear marker
selection indices (lmsi()).
Added new comprehensive toolsets to actively simulate and visualize
multi-cycle genetic advance over time under varied selection index
intensities and environmental variances
(simulate_selection_cycles()).
Created a complete pkgdown official website.
Added a complete vignette suite detailing the mathematical
foundation and code usage for all new marker, genomic, multi-stage,
constrained, and stochastic features.
selection.index 1.2.1
improve the overall performance of the package
selection.index 1.2.0
add new function meanPerformance() for calculating the
mean performance in randomized block design data
remove some typos from the documentation
selection.index 1.1.4
removed two functions sel.index() and
sel.score.rank() for easy implementation of
comb.indices()
selection.index 1.1.3
Added a new function gen.advance() for genetic advance
calculation
selection.index 1.1.2
rank column added in rcomb.indices() for ranking of
index
selection.index 1.1.1
Added a new function rcomb.indices() for calculated
possible selection indices excluding single character or particular
index from all possible selection indices
selection.index 1.1.0
Bug fixes in phen.varcov()
Added a new function comb.indices() for calculating
possible selection indices with the group/pairs of
traits/characters
removed function: rank.index()
selection.index 1.0.0
Added a NEWS.md file to track changes to the
package.