gdsfmt: R Interface to CoreArray Genomic Data Structure (GDS) files

This package provides a high-level R interface to CoreArray Genomic Data Structure (GDS) data files, which are portable across platforms and include 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 with less than 8 bits, since a single genetic/genomic variant, such like single-nucleotide polymorphism, usually occupies fewer bits than a byte. Data compression and decompression are also supported. It is allowed to read a GDS file in parallel with multiple R processes supported by the parallel package.

Version: 1.1.0
Depends: R (≥ 2.14.0)
Imports: methods
Suggests: parallel, RUnit
Published: 2014-09-11
Author: Xiuwen Zheng
Maintainer: Xiuwen Zheng <zhengx at>
License: LGPL-3
NeedsCompilation: yes
Citation: gdsfmt citation info
Materials: README NEWS
CRAN checks: gdsfmt results


Reference manual: gdsfmt.pdf
Package source: gdsfmt_1.1.0.tar.gz
Windows binaries: r-devel: not available, r-release: not available, r-oldrel: not available
OS X Snow Leopard binaries: r-release: not available, r-oldrel: not available
OS X Mavericks binaries: r-release: not available
Old sources: gdsfmt archive