Package: RBCFTools
Title: 'BCFTools', 'libbcftools' and 'htslib' Wrappers and 'BCF'/'VCF'
        to 'Parquet' Convertors
Version: 1.23-0.0.3.1.9001
Authors@R: c(
    person(given = "Sounkou Mahamane", family = "Toure", 
    email = "sounkoutoure@gmail.com", role = c("aut", "cre")),
    person( given = "Bonfield, James K and Marshall, John and Danecek, Petr and Li, Heng and Ohan, Valeriu and Whitwham, Andrew and Keane, Thomas Davies, Robert M, Pierre Lindenbaum",  role = "cph",
           comment = "Authors of included htslib library and bcftools command line tools"),
    person(given = "Zilong", family = "Li", email = "zilong.dk@gmail.com", role = c("cph"),
           comment = "Author of the vcfpp library from whom makefiles and configure strategy is borrowed"),
    person(given = "Duckdb C API and extension and API authors", role = "cph",
           comment = "Authors of the duckdb extension and API used for parquet export"),
    person(given = "Giulio", family = "Genovese", email = "giulio.genovese@gmail.com", role = "cph", comment = "Author of BCFTools munge plugin"))
Description: Bundles the 'htslib' and 'bcftools' libraries and command
        lines tools for reading and manipulating VCF/BCF files.
        Includes streaming facilities from VCF to Apache Arrow via
        'nanoarrow', enabling export to Arrow IPC format and Parquet
        format using 'duckdb' including a 'bcf_reader' extension.
        Utilities for reading and writing VCF/BCF files into 'DuckLake'
        are included. provided.
License: GPL (>= 3)
Copyright: See inst/AUTHORS
Depends: R (>= 4.4.0), parallel
Imports: nanoarrow, vctrs
LinkingTo: nanoarrow
SystemRequirements: GNU make, pkg-config, libcurl, libgsl, libdeflate,
        libbzip2, libzlib, libssl-dev (or other ssl library), liblzma,
        libsuitesparse-dev/libcholmod5 (optional for pgs plugin)
Suggests: tinytest, vcfppR, duckdb, processx, DBI
OS_type: unix
URL: https://github.com/RGenomicsETL/RBCFTools,
        https://rgenomicsetl.github.io/RBCFTools/
BugReports: https://github.com/RGenomicsETL/RBCFTools/issues
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Config/pak/sysreqs: make libgsl0-dev liblzma-dev libzstd-dev pkg-config
Repository: https://rgenomicsetl.r-universe.dev
Date/Publication: 2026-04-09 15:32:14 UTC
RemoteUrl: https://github.com/RGenomicsETL/RBCFTools
RemoteRef: HEAD
RemoteSha: 6ee59bc75ad79dee265f8ac3594f825ba3cb8ae8
NeedsCompilation: yes
Packaged: 2026-06-08 11:08:29 UTC; root
Author: Sounkou Mahamane Toure [aut, cre],
  Bonfield, James K and Marshall, John and Danecek, Petr and Li, Heng and
    Ohan, Valeriu and Whitwham, Andrew and Keane, Thomas Davies, Robert
    M, Pierre Lindenbaum [cph] (Authors of included htslib library and
    bcftools command line tools),
  Zilong Li [cph] (Author of the vcfpp library from whom makefiles and
    configure strategy is borrowed),
  Duckdb C API and extension and API authors [cph] (Authors of the duckdb
    extension and API used for parquet export),
  Giulio Genovese [cph] (Author of BCFTools munge plugin)
Maintainer: Sounkou Mahamane Toure <sounkoutoure@gmail.com>