This is the development version of plasmut; for the stable release version, see plasmut.
Stratifying mutations observed in cell-free DNA and white blood cells as germline, hematopoietic, or somaticBioconductor version: Development (3.22)
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.
Author: Adith Arun [aut, cre], Robert Scharpf [aut]
Maintainer: Adith Arun <adith.3.arun at gmail.com>
Citation (from within R, entercitation("plasmut")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("plasmut")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("plasmut")Follow Installation instructions to use this package in your R session.
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