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Stratifying mutations observed in cell-free DNA and white blood cells as germline, hematopoietic, or somatic

Bioconductor version: Release (3.18)

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>

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Modeling the origin of mutations in a liquid biopsy: cancer or clonal hematopoiesis? HTML R Script
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biocViews Bayesian, GermlineMutation, Sequencing, Software, SomaticMutation
Version 1.0.0
In Bioconductor since BioC 3.18 (R-4.3) (< 6 months)
License Artistic-2.0
Depends R (>= 4.3.0)
Imports tibble, stats, dplyr
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Suggests knitr, rmarkdown, tidyverse, ggrepel, magrittr, qpdf, BiocStyle, biocViews, testthat (>= 3.0.0)
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