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PlasmaMutationDetector2  

Tumor Mutation Detection in Plasma using Barcoding
View on CRAN: Click here


Download and install PlasmaMutationDetector2 package within the R console
Install from CRAN:
install.packages("PlasmaMutationDetector2")

Install from Github:
library("remotes")
install_github("cran/PlasmaMutationDetector2")

Install by package version:
library("remotes")
install_version("PlasmaMutationDetector2", "1.1.11")



Attach the package and use:
library("PlasmaMutationDetector2")
Maintained by
Rozenholc
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2022-05-03
Latest Update: 2022-05-03
Description:
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 using barcoding. Mutations are assessed by comparing the minor-allele frequency at each position to the measured PER in control samples. This package has been used for Kjersti Tjensvoll, Morten Lapin, Bj
How to cite:
Rozenholc (2022). PlasmaMutationDetector2: Tumor Mutation Detection in Plasma using Barcoding. R package version 1.1.11, https://cran.r-project.org/web/packages/PlasmaMutationDetector2. Accessed 22 Dec. 2024.
Previous versions and publish date:
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Complete documentation for PlasmaMutationDetector2
Functions, R codes and Examples using the PlasmaMutationDetector2 R package
Some associated functions: BuildCtrlErrorRate . DetectPlasmaMutation . LoadBackgroundErrorRate . MAF_from_BAM . PrepareLibrary . background_error_rate . hotspot . positions_ranges . 
Some associated R codes: functions_1.1.10.R .  Full PlasmaMutationDetector2 package functions and examples
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