PlasmaMutationDetector: Tumor Mutation Detection in Plasma

Aims at detecting single nucleotide variation (SNV) and insertion/deletion (INDEL) in circulating tumor DNA (ctDNA), used as a surrogate marker for tumor, at each base position of an Next Generation Sequencing (NGS) analysis. Mutations are assessed by comparing the minor-allele frequency at each position to the measured PER in control samples.

Version:	1.7.2
Depends:	R (≥ 3.4.0), ggplot2 (≥ 2.2.0), grid (≥ 3.4.0), GenomicRanges (≥ 1.30.0), VariantAnnotation (≥ 1.24.0)
Imports:	S4Vectors (≥ 0.16.0), Rsamtools (≥ 1.30.0), rtracklayer (≥ 1.38.0), robustbase (≥ 0.92-8), SummarizedExperiment (≥ 1.8.0)
Published:	2018-06-11
DOI:	10.32614/CRAN.package.PlasmaMutationDetector
Author:	Yves Rozenholc, Nicolas Pécuchet, Pierre Laurent-Puig
Maintainer:	Yves Rozenholc <yves.rozenholc at parisdescartes.fr>
License:	MIT + file LICENSE
NeedsCompilation:	no
CRAN checks:	PlasmaMutationDetector results

Documentation:

Reference manual:

PlasmaMutationDetector.pdf

Downloads:

Package source:	PlasmaMutationDetector_1.7.2.tar.gz
Windows binaries:	r-devel: PlasmaMutationDetector_1.7.2.zip, r-release: PlasmaMutationDetector_1.7.2.zip, r-oldrel: PlasmaMutationDetector_1.7.2.zip
macOS binaries:	r-release (arm64): PlasmaMutationDetector_1.7.2.tgz, r-oldrel (arm64): PlasmaMutationDetector_1.7.2.tgz, r-release (x86_64): PlasmaMutationDetector_1.7.2.tgz, r-oldrel (x86_64): PlasmaMutationDetector_1.7.2.tgz
Old sources:	PlasmaMutationDetector archive

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