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Representing GDS files as array-like objects

Bioconductor version: Release (3.19)

GDS files are widely used to represent genotyping or sequence data. The GDSArray package implements the `GDSArray` class to represent nodes in GDS files in a matrix-like representation that allows easy manipulation (e.g., subsetting, mathematical transformation) in _R_. The data remains on disk until needed, so that very large files can be processed.

Author: Qian Liu [aut, cre], Martin Morgan [aut], Hervé Pagès [aut], Xiuwen Zheng [aut]

Maintainer: Qian Liu <qliu7 at>

Citation (from within R, enter citation("GDSArray")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

GDSArray: Representing GDS files as array-like objects HTML R Script
Reference Manual PDF


biocViews DataRepresentation, GenotypingArray, Infrastructure, Sequencing, Software
Version 1.24.2
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License GPL-3
Depends R (>= 3.5), gdsfmt, methods, BiocGenerics, DelayedArray(>= 0.5.32)
Imports tools, S4Vectors(>= 0.17.34), SNPRelate, SeqArray
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Suggests testthat, knitr, markdown, rmarkdown, BiocStyle, BiocManager
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Imports Me CNVRanger, VariantExperiment
Suggests Me DelayedDataFrame
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Follow Installation instructions to use this package in your R session.

Source Package GDSArray_1.24.2.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) GDSArray_1.24.2.tgz
macOS Binary (arm64) GDSArray_1.24.2.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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Old Source Packages for BioC 3.19 Source Archive