Package: pooledpeaks
Title: Genetic Analysis of Pooled Samples
Version: 1.2.2
Authors@R: c( 
    person("Kathleen", "Kuesters", email = "kathleen.kuesters@gmail.com", 
       role = c("aut", "cre", "cph"), comment = c(ORCID = "0000-0003-0238-7889")),
    person("Jeffrey", "Long", role = c("aut")),
    person("Jessica", "Blanton", role = c("aut")),
    person("Walter", "Blank", role = c("ctb")),
    person("Jeffrey", "Kovach", role = c("ctb")),
    person("Ronald", "Blanton", role = c("ctb")))
Description: Analyzing genetic data obtained from pooled samples. 
    This package can read in Fragment Analysis output files, process the data, 
    and score peaks, as well as facilitate various analyses, including cluster 
    analysis, calculation of genetic distances and diversity indices, 
    as well as bootstrap resampling for statistical inference. Specifically 
    tailored to handle genetic data efficiently, researchers can explore 
    population structure, genetic differentiation, and genetic relatedness 
    among samples. We updated some functions from Covarrubias-Pazaran et al. 
    (2016) <doi:10.1186/s12863-016-0365-6> to allow for the use of new file formats 
    and referenced the following to write our genetic analysis functions: 
    Long et al. (2022) <doi:10.1038/s41598-022-04776-0>, Jost (2008) 
    <doi:10.1111/j.1365-294x.2008.03887.x>, Nei (1973) 
    <doi:10.1073/pnas.70.12.3321>, Foulley et al. (2006) 
    <doi:10.1016/j.livprodsci.2005.10.021>, Chao et al. (2008) 
    <doi:10.1111/j.1541-0420.2008.01010.x>.
URL: https://github.com/kmkuesters/pooledpeaks
License: GPL (>= 3)
Encoding: UTF-8
RoxygenNote: 7.3.2
Imports: ape, dplyr, Fragman, graphics, magrittr, pdftools, qpdf,
        rlang, stats, tibble, tidyr, utils
Suggests: knitr, plyr, rmarkdown, testthat (>= 3.0.0)
Config/testthat/edition: 3
BugReports: https://github.com/kmkuesters/pooledpeaks/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2025-05-08 15:58:41 UTC; Kathleen
Author: Kathleen Kuesters [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0003-0238-7889>),
  Jeffrey Long [aut],
  Jessica Blanton [aut],
  Walter Blank [ctb],
  Jeffrey Kovach [ctb],
  Ronald Blanton [ctb]
Maintainer: Kathleen Kuesters <kathleen.kuesters@gmail.com>
Repository: CRAN
Date/Publication: 2025-05-09 02:10:02 UTC
Built: R 4.7.0; ; 2026-06-10 03:47:18 UTC; windows
