castgen: Estimate Sample Size for Population Genomic Studies
Estimate sample sizes needed to capture target levels of genetic diversity from a population (multivariate allele frequencies) for applications like germplasm conservation and breeding efforts. Compares bootstrap samples to a full population using linear regression, employing the R-squared value to represent the proportion of diversity captured. Iteratively increases sample size until a user-defined target R-squared is met. Offers a parallelized R implementation of a previously developed 'python' method. All ploidy levels are supported. For more details, see Sandercock et al. (2024) <doi:10.1073/pnas.2403505121>.
| Version: | 1.0.2 |
| Imports: | doParallel (≥ 1.0.17), dplyr (≥ 1.1.2), foreach (≥ 1.5.2), parallel (≥ 4.0.0), Rdpack (≥ 0.7), stats, utils, vcfR (≥ 1.15.0) |
| Suggests: | testthat (≥ 3.0.0) |
| Published: | 2025-04-02 |
| DOI: | 10.32614/CRAN.package.castgen |
| Author: | Alexander M. Sandercock
 [aut, cre] |
| Maintainer: | Alexander M. Sandercock <ams866 at cornell.edu> |
| BugReports: | https://github.com/alex-sandercock/castgen/issues |
| License: | Apache License (≥ 2) |
| URL: | https://github.com/alex-sandercock/castgen |
| NeedsCompilation: | no |
| Materials: | README, NEWS |
| CRAN checks: | castgen results |
Documentation:
| Reference manual: | castgen.html , castgen.pdf |
Downloads:
| Package source: | castgen_1.0.2.tar.gz |
| Windows binaries: | r-devel: castgen_1.0.2.zip, r-release: castgen_1.0.2.zip, r-oldrel: castgen_1.0.2.zip |
| macOS binaries: | r-release (arm64): castgen_1.0.2.tgz, r-oldrel (arm64): castgen_1.0.2.tgz, r-release (x86_64): castgen_1.0.2.tgz, r-oldrel (x86_64): castgen_1.0.2.tgz |
Linking:
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