Package: queeems
Version: 0.99.7
Date: 2025-04-24
License: GPL-3 + file LICENSE
Authors@R: c(person("Hassan", "Sadiq", role=c("aut","cre","cph","fnd"),
                    email="hassan.t.sadiq@gmail.com",
                    comment=c(ORCID="0000-0003-0192-7134")))
Title: Quantify the Extent of Evolutionary Evidence in Molecular
        Sequences
Description: Biological inferences obtained from molecular data are only as
    good as the extent of evolutionary signatures retained in the genetic
    data. Techniques available to quantify these signatures are largely
    targeted towards phylogeny reconstruction and they often rely on adhoc
    hypothesis tests of significance. I present a Bayesian function that
    assesses whether a set of genetic sequences are saturated. That is, it
    is useful for determining whether the evolutionary information in the
    sequences has eroded with time. Site specific Bayes factors are generated
    with respect to codon bases to allow for straightforward applications in
    extensive computational biology inquiries, including natural selection
    analyses.
Depends: R (>= 4.6.0), Biostrings
Imports: gtools, Matrix, methods, stats
Suggests: BiocStyle, knitr, testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
biocViews: Alignment, Bayesian, Classification, DataImport, Genetics,
        MathematicalBiology, ResearchField, Sequencing,
        SequenceMatching, Software, StatisticalMethod, WorkflowStep
Contact: <hassan.t.sadiq@gmail.com>
URL: https://github.com/thsadiq/queeems
BugReports: https://github.com/thsadiq/queeems/issues
Packaged: 2026-04-26 23:42:16 UTC; biocbuild
git_url: https://git.bioconductor.org/packages/queeems
git_branch: devel
git_last_commit: 2053ea3
git_last_commit_date: 2026-04-24
Repository: Bioconductor 3.23
Date/Publication: 2026-04-26
NeedsCompilation: no
Author: Hassan Sadiq [aut, cre, cph, fnd] (ORCID:
    <https://orcid.org/0000-0003-0192-7134>)
Maintainer: Hassan Sadiq <hassan.t.sadiq@gmail.com>
