Package: plasmut
Type: Package
Title: Stratifying mutations observed in cell-free DNA and white blood
        cells as germline, hematopoietic, or somatic
Version: 1.10.0
Authors@R: 
  c(person(given = "Adith",
           family = "Arun",
           role = c("aut", "cre"),
           email = "adith.3.arun@gmail.com"),
    person(given = "Robert",
           family = "Scharpf",
           role = "aut"))
Description: A Bayesian method for quantifying the liklihood that a
        given plasma mutation arises from clonal hematopoesis or the
        underlying tumor. It requires sequencing data of the mutation
        in plasma and white blood cells with the number of distinct and
        mutant reads in both tissues. We implement a Monte Carlo
        importance sampling method to assess the likelihood that a
        mutation arises from the tumor relative to non-tumor origin.
License: Artistic-2.0
Encoding: UTF-8
biocViews: Bayesian, SomaticMutation, GermlineMutation, Sequencing
RoxygenNote: 7.2.3
Imports: tibble, stats, dplyr
Depends: R (>= 4.3.0)
Suggests: knitr, rmarkdown, tidyverse, ggrepel, magrittr, qpdf,
        BiocStyle, biocViews, testthat (>= 3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
Repository: Bioconductor 3.23
Date/Publication: 2026-04-28 13:01:40 UTC
RemoteUrl: https://github.com/bioc/plasmut
RemoteRef: RELEASE_3_23
RemoteSha: 6f5ab62a12b02bb573295a1b7eeae7de98e134b9
NeedsCompilation: no
Packaged: 2026-10-01 11:59:18 UTC; root
Author: Adith Arun [aut, cre],
  Robert Scharpf [aut]
Maintainer: Adith Arun <adith.3.arun@gmail.com>