cfDNAPro

DOI: 10.18129/B9.bioc.cfDNAPro    

This Package Helps Characterise and Visualise Whole Genome Sequencing Data from Liquid Biopsy

Bioconductor version: Release (3.12)

cfDNA fragment size metrics are important features for utilizing liquid biopsy in tumor early detection, diagnosis, therapy personlization and monitoring. Analyzing and visualizing insert size metrics could be time intensive. This package intends to simplify this exploration process, and it offers two sets of functions for data characterization and data visualization.

Author: Haichao Wang [aut, cre], Hui Zhao [ctb], Christopher Smith [ctb]

Maintainer: Haichao Wang <hw538 at cam.ac.uk>

Citation (from within R, enter citation("cfDNAPro")):

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("cfDNAPro")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("cfDNAPro")

 

HTML R Script cfDNAPro Tutorial
PDF   Reference Manual
Text   NEWS

Details

biocViews Sequencing, Software, Visualization, WholeGenome
Version 1.0.0
In Bioconductor since BioC 3.12 (R-4.0) (< 6 months)
License GPL-3
Depends R (>= 4.0), magrittr (>= 1.5.0)
Imports stats, utils, dplyr (>= 0.8.3), stringr (>= 1.4.0), quantmod (>= 0.4), ggplot2 (>= 3.2.1), Rsamtools(>= 2.4.0), rlang (>= 0.4.0)
LinkingTo
Suggests scales, ggpubr, knitr (>= 1.23), rmarkdown (>= 1.14), devtools (>= 2.3.0), BiocStyle, testthat
SystemRequirements
Enhances
URL https://github.com/hw538/cfDNAPro
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package cfDNAPro_1.0.0.tar.gz
Windows Binary cfDNAPro_1.0.0.zip
macOS 10.13 (High Sierra) cfDNAPro_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/cfDNAPro
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/cfDNAPro
Package Short Url https://bioconductor.org/packages/cfDNAPro/
Package Downloads Report Download Stats

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