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DESCRIPTION
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DESCRIPTION
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Package: gdsfmt
Type: Package
Title: R Interface to CoreArray Genomic Data Structure (GDS) Files
Version: 1.40.1
Date: 2024-08-15
Depends: R (>= 2.15.0), methods
Suggests: parallel, digest, Matrix, crayon, RUnit, knitr, markdown, rmarkdown,
BiocGenerics
Author: Xiuwen Zheng [aut, cre] (<https://orcid.org/0000-0002-1390-0708>),
Stephanie Gogarten [ctb],
Jean-loup Gailly and Mark Adler [ctb] (for the included zlib sources),
Yann Collet [ctb] (for the included LZ4 sources),
xz contributors [ctb] (for the included liblzma sources)
Maintainer: Xiuwen Zheng <zhengx@u.washington.edu>
Description: Provides a high-level R interface to CoreArray Genomic Data
Structure (GDS) data files. GDS is portable across platforms with
hierarchical structure to store multiple scalable array-oriented data
sets with metadata information. It is suited for large-scale datasets,
especially for data which are much larger than the available
random-access memory. The gdsfmt package offers the efficient operations
specifically designed for integers of less than 8 bits, since a diploid
genotype, like single-nucleotide polymorphism (SNP), usually occupies
fewer bits than a byte. Data compression and decompression are available
with relatively efficient random access. It is also allowed to read a
GDS file in parallel with multiple R processes supported by the package
parallel.
License: LGPL-3
Copyright: This package includes the sources of CoreArray C++ library
written by Xiuwen Zheng (LGPL-3), zlib written by Jean-loup
Gailly and Mark Adler (zlib license), LZ4 written by Yann
Collet (simplified BSD), and liblzma written by Lasse Collin and
other xz contributors (public domain).
VignetteBuilder: knitr
ByteCompile: TRUE
BugReports: https://github.com/zhengxwen/gdsfmt/issues
URL: https://github.com/zhengxwen/gdsfmt
biocViews: Infrastructure, DataImport