This is the development version of cfdnakit; for the stable release version, see cfdnakit.
Fragmen-length analysis package from high-throughput sequencing of cell-free DNA (cfDNA)Bioconductor version: Development (3.22)
This package provides basic functions for analyzing shallow whole-genome sequencing (~0.3X or more) of cell-free DNA (cfDNA). The package basically extracts the length of cfDNA fragments and aids the vistualization of fragment-length information. The package also extract fragment-length information per non-overlapping fixed-sized bins and used it for calculating ctDNA estimation score (CES).
Author: Pitithat Puranachot [aut, cre] ORCID: 0000-0002-6786-9240
Maintainer: Pitithat Puranachot <pitithat at gmail.com>
Citation (from within R, entercitation("cfdnakit")): 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("cfdnakit")
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("cfdnakit")Follow Installation instructions to use this package in your R session.
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