Provides tools for optimizing sequencing resource allocation and estimating pathogen lineage prevalence under real-world genomic surveillance conditions. Implements constrained allocation optimization for limited sequencing capacity across multiple regions and sample sources. Includes Horvitz-Thompson and post-stratified estimators that account for unequal sequencing rates, delay-adjusted nowcasting for right-censored reporting data, and combined design-weighted delay-corrected inference with uncertainty propagation.
| Version: | 0.1.0 |
| Depends: | R (≥ 4.1.0) |
| Imports: | checkmate (≥ 2.0.0), cli (≥ 3.0.0), dplyr (≥ 1.1.0), generics, ggplot2 (≥ 3.4.0), methods, purrr, rlang (≥ 1.0.0), stats, tibble |
| Suggests: | MASS, Matrix, nloptr (≥ 2.0.0), survey, tidyr, vctrs, covr, knitr, rmarkdown, scales, testthat (≥ 3.0.0), withr |
| Published: | 2026-04-02 |
| DOI: | 10.32614/CRAN.package.survinger (may not be active yet) |
| Author: | Cuiwei Gao [aut, cre, cph] |
| Maintainer: | Cuiwei Gao <48gaocuiwei at gmail.com> |
| BugReports: | https://github.com/CuiweiG/survinger/issues |
| License: | MIT + file LICENSE |
| URL: | https://github.com/CuiweiG/survinger |
| NeedsCompilation: | no |
| Language: | en-US |
| Citation: | survinger citation info |
| Materials: | README, NEWS |
| CRAN checks: | survinger results [issues need fixing before 2026-04-17] |
| Package source: | survinger_0.1.0.tar.gz |
| Windows binaries: | r-devel: survinger_0.1.0.zip, r-release: not available, r-oldrel: not available |
| macOS binaries: | r-release (arm64): not available, r-oldrel (arm64): not available, r-release (x86_64): not available, r-oldrel (x86_64): not available |
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