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.
Version: 9.7 Suggests: testthat, SKAT Published: 2024-10-02 DOI: 10.32614/CRAN.package.seqminer 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] Maintainer: Xiaowei Zhan <zhanxw at gmail.com> BugReports: https://github.com/zhanxw/seqminer/issues License: GPL-2 | GPL-3 | file LICENSE [expanded from: GPL | file LICENSE] 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. URL: http://zhanxw.github.io/seqminer/ NeedsCompilation: yes SystemRequirements: C++17, zlib headers and libraries, GNU make, optionally also bzip2 and POSIX-compliant regex functions. Citation: seqminer citation info Materials: README, ChangeLog CRAN checks: seqminer resultsRetroSearch is an open source project built by @garambo | Open a GitHub Issue
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