DOI: 10.18129/B9.bioc.cfdnakit  

Fragmen-length analysis package from high-throughput sequencing of cell-free DNA (cfDNA)

Bioconductor version: Release (3.18)

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]

Maintainer: Pitithat Puranachot <pitithat at>

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


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biocViews CopyNumberVariation, Sequencing, Software, WholeGenome
Version 1.0.0
In Bioconductor since BioC 3.18 (R-4.3) (< 6 months)
License GPL-3
Depends R (>= 4.3)
Imports Biobase, dplyr, GenomicRanges, GenomeInfoDb, ggplot2, IRanges, magrittr, PSCBS, QDNAseq, Rsamtools, utils, S4Vectors, stats, rlang
Suggests rmarkdown, knitr, roxygen2, BiocStyle
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