Package: GDSArray 1.33.0

Xiuwen Zheng

GDSArray: Representing GDS files as array-like objects

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.

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

GDSArray_1.33.0.tar.gz
GDSArray_1.33.0.zip(r-4.7)GDSArray_1.33.0.zip(r-4.6)GDSArray_1.33.0.zip(r-4.5)
GDSArray_1.33.0.tgz(r-4.6-any)GDSArray_1.33.0.tgz(r-4.5-any)
GDSArray_1.33.0.tar.gz(r-4.7-any)GDSArray_1.33.0.tar.gz(r-4.6-any)
GDSArray_1.33.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
GDSArray/json (API)
NEWS

# Install 'GDSArray' in R:
install.packages('GDSArray', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/bioconductor/gdsarray/issues

On BioConductor:GDSArray-1.33.0(bioc 3.24)GDSArray-1.32.0(bioc 3.23)

infrastructuredatarepresentationsequencinggenotypingarray

6.26 score 5 stars 2 packages 8 scripts 434 downloads 12 exports 22 dependencies

Last updated from:c911edac10. Checks:8 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE167
linux-devel-x86_64NOTE300
source / vignettesOK214
linux-release-x86_64NOTE290
macos-release-arm64NOTE178
macos-oldrel-arm64NOTE203
windows-develNOTE240
windows-releaseNOTE171
windows-oldrelNOTE144
wasm-releaseOK111

Exports:acquireGDScoerceextract_arrayGDSArraygdsExampleFileNamegdsfileGDSFilegdsfile<-gdsnodesreleaseGDSseedseed<-

Dependencies:abindBiocGenericsBiostringscrayonDelayedArraydigestgdsfmtgenericsGenomicRangesIRangeslatticeMatrixMatrixGenericsmatrixStatsRhpcBLASctlS4ArraysS4VectorsSeqArraySeqinfoSNPRelateSparseArrayXVector

GDSArray: Representing GDS files as array-like objects

Qian Liu, Hervé Pagès, Martin Morgan

Rendered fromGDSArray.Rmdusingknitr::rmarkdownon May 30 2026.

Last update: 2024-05-22
Started: 2018-03-01

Readme and manuals

Help Manual

Help pageTopics
Acquire the GDS file connection in R in the 'gds.class' class.acquireGDS releaseGDS
GDSArray constructor and coercion methods.coerce coerce,ANY,GDSMatrix-method coerce,GDSArray,GDSMatrix-method coerce,GDSMatrix,GDSArray-method extract_array extract_array,GDSArraySeed-method GDSArray GDSArray-class GDSArray-data GDSArray-method gdsExampleFileName GDSMatrix GDSMatrix-class matrixClass,GDSArray-method
GDSFile constructor and methods.$,GDSFile-method GDSFile GDSFile,gdsfile-method gdsfile,GDSFile-method GDSFile-class GDSFile-constructor GDSFile-method gdsfile<- gdsfile<-,GDSFile-method gdsnodes gdsnodes,ANY-method gdsnodes,GDSFile-method
GDSArraySeed or GDSArray related methods, slot getters and setters.gdsfile gdsfile,DelayedArray-method gdsfile,GDSArray-method gdsfile,GDSArraySeed-method seed,GDSArray-method seed<-,GDSArray-method