Package: seqminer
Type: Package
Title: Efficiently Read Sequence Data (VCF Format, BCF Format, METAL
        Format and BGEN Format) into R
Version: 9.9
Date: 2026-02-23
Authors@R: c(person("Xiaowei", "Zhan", email = "zhanxw@gmail.com", role = c("aut", "cre")),
           person("Dajiang", "Liu", email = "dajiang.liu@gmail.com", role = "aut"),
           person("Attractive Chaos", email = "attractor@live.co.uk", role = "cph", comment = "We have used the following software and made minimal necessary changes: Tabix, Heng Li <lh3@live.co.uk> (MIT license). We removed standard IO related functions, e.g. printf, fprintf ; also changed its un-safe pointer arithmetics."),	
           person("Broad Institute / Massachusetts Institute of Technology", role = "cph"),
           person("Genome Research Ltd (GRL)", role = "cph"),
	       person("Facebook, Inc", role = "cph"),
           person("D. Richard Hipp", role = "cph"))
Maintainer: Xiaowei Zhan <zhanxw@gmail.com>
Description: Integrate sequencing data (Variant call format, e.g. VCF
        or BCF) or meta-analysis results in R. This package can help
        you (1) read VCF/BCF/BGEN files by chromosomal ranges (e.g.
        1:100-200); (2) read 'RareMETAL' summary statistics files; (3)
        read tables from a 'tabix'-indexed files; (4) annotate VCF/BCF
        files; (5) create customized workflow based on Makefile.
Copyright: We have used the following software and made minimal
        necessary changes: tabix, Heng Li <lh3@live.co.uk> (MIT
        license), SQLite (Public Domain), Zstandard (BSD license). For
        tabix, we removed standard IO related functions, e.g. printf,
        fprintf ; also changed its un-safe pointer arithmetics. For
        zstandard, we removed compiler (clang, MSVC) specific
        preprocessing flags.
License: GPL | file LICENSE
URL: http://zhanxw.github.io/seqminer/
BugReports: https://github.com/zhanxw/seqminer/issues
Packaged: 2026-07-07 10:08:49 UTC; root
Suggests: testthat, SKAT
SystemRequirements: zlib headers and libraries, GNU make, optionally
        also bzip2 and POSIX-compliant regex functions.
NeedsCompilation: yes
RoxygenNote: 7.2.3
Encoding: UTF-8
Author: Xiaowei Zhan [aut, cre], Dajiang Liu [aut], Attractive Chaos
        [cph] (We have used the following software and made minimal
        necessary changes: Tabix, Heng Li <lh3@live.co.uk> (MIT
        license). We removed standard IO related functions, e.g.
        printf, fprintf ; also changed its un-safe pointer
        arithmetics.), Broad Institute / Massachusetts Institute of
        Technology [cph], Genome Research Ltd (GRL) [cph], Facebook,
        Inc [cph], D. Richard Hipp [cph]
Config/pak/sysreqs: make zlib1g-dev
Repository: https://zhanxw.r-universe.dev
Date/Publication: 2026-02-23 20:30:50 UTC
RemoteUrl: https://github.com/zhanxw/seqminer
RemoteRef: HEAD
RemoteSha: 46e3c9ab06e8ca645145bf51fe764e6b2f224d0b