Package: cfdnakit
Title: Fragmen-length analysis package from high-throughput sequencing
        of cell-free DNA (cfDNA)
Version: 1.8.0
Authors@R: person(given = "Pitithat",
           family = "Puranachot",
           role = c("aut", "cre"),
           email = "pitithat@gmail.com",
           comment = c(ORCID = "0000-0002-6786-9240"))
Description: 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).
License: GPL-3
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
biocViews: CopyNumberVariation, Sequencing, WholeGenome
BugReports: https://github.com/Pitithat-pu/cfdnakit/issues
Imports: Biobase, dplyr, GenomicRanges, GenomeInfoDb, ggplot2, IRanges,
        magrittr, PSCBS, QDNAseq, Rsamtools, utils, S4Vectors, stats,
        rlang
Depends: R (>= 4.3)
Suggests: rmarkdown, knitr, roxygen2, BiocStyle
VignetteBuilder: knitr
Config/pak/sysreqs: libbz2-dev liblzma-dev libssl-dev xz-utils
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:23:56 UTC
RemoteUrl: https://github.com/bioc/cfdnakit
RemoteRef: RELEASE_3_22
RemoteSha: 7eac6e703110dbfaf30ef7fd46aecdaa6bf2d7f9
NeedsCompilation: no
Packaged: 2025-11-11 14:17:50 UTC; root
Author: Pitithat Puranachot [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-6786-9240>)
Maintainer: Pitithat Puranachot <pitithat@gmail.com>
Built: R 4.5.2; ; 2025-11-11 14:24:51 UTC; windows
