NEWS
selection.index 2.0.1.9000
selection.index 2.0.1 (2026-03-08)
- 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 (2026-02-28)
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 (2026-01-26)
- improve the overall performance of the package
selection.index 1.2.0 (2023-09-19)
- 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 (2022-06-13)
- removed two functions
sel.index() and sel.score.rank() for easy implementation of comb.indices()
selection.index 1.1.3 (2021-09-25)
- Added a new function
gen.advance() for genetic advance calculation
selection.index 1.1.2 (2021-07-26)
- rank column added in
rcomb.indices() for ranking of index
selection.index 1.1.1 (2021-06-03)
- 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 (2021-04-23)
- 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 (2021-04-06)
- Added a
NEWS.md file to track changes to the package.