GDSArray
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 buffalo.edu>
citation("GDSArray")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GDSArray")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("GDSArray")
GDSArray: Representing GDS files as array-like objects | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | DataRepresentation, GenotypingArray, Infrastructure, Sequencing, Software |
Version | 1.24.2 |
In Bioconductor since | BioC 3.7 (R-3.5) (6.5 years) |
License | GPL-3 |
Depends | R (>= 3.5), gdsfmt, methods, BiocGenerics, DelayedArray(>= 0.5.32) |
Imports | tools, S4Vectors(>= 0.17.34), SNPRelate, SeqArray |
System Requirements | |
URL | https://github.com/Bioconductor/GDSArray |
Bug Reports | https://github.com/Bioconductor/GDSArray/issues |
See More
Suggests | testthat, knitr, markdown, rmarkdown, BiocStyle, BiocManager |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | CNVRanger, VariantExperiment |
Suggests Me | DelayedDataFrame |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | GDSArray_1.24.2.tar.gz |
Windows Binary | GDSArray_1.24.2.zip (64-bit only) |
macOS Binary (x86_64) | GDSArray_1.24.2.tgz |
macOS Binary (arm64) | GDSArray_1.24.2.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/GDSArray |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GDSArray |
Bioc Package Browser | https://code.bioconductor.org/browse/GDSArray/ |
Package Short Url | https://bioconductor.org/packages/GDSArray/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.19 | Source Archive |