Package: TileDBArray 1.23.0

Aaron Lun

TileDBArray: Using TileDB as a DelayedArray Backend

Implements a DelayedArray backend for reading and writing dense or sparse arrays in the TileDB format. The resulting TileDBArrays are compatible with all Bioconductor pipelines that can accept DelayedArray instances.

Authors:Aaron Lun [aut, cre], Genentech, Inc. [cph]

TileDBArray_1.23.0.tar.gz
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manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
TileDBArray/json (API)

# Install 'TileDBArray' in R:

install.packages('TileDBArray', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ltla/tiledbarray/issues

On BioConductor:TileDBArray-1.23.0(bioc 3.24)TileDBArray-1.22.0(bioc 3.23)

datarepresentation infrastructure software

6.93 score 11 stars 1 packages 26 scripts 359 downloads 30 exports 25 dependencies

Last updated from:2d0c3223a3. Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	WARNING	173
linux-devel-x86_64	NOTE	270
source / vignettes	OK	241
linux-release-x86_64	NOTE	253
macos-release-arm64	NOTE	140
macos-oldrel-arm64	NOTE	185
windows-devel	NOTE	200
windows-release	NOTE	191
windows-oldrel	NOTE	203
wasm-release	OK	131

Exports:chunkdim DelayedArray extract_array extract_sparse_array getTileDBAttr getTileDBCapacity getTileDBCellOrder getTileDBContext getTileDBDimType getTileDBExtent getTileDBPath getTileDBTileOrder is_sparse matrixClass path setTileDBAttr setTileDBCapacity setTileDBCellOrder setTileDBContext setTileDBDimType setTileDBExtent setTileDBPath setTileDBTileOrder show TileDBArray TileDBArraySeed TileDBRealizationSink type write_block writeTileDBArray

Dependencies:abind BiocGenerics bit bit64 DelayedArray generics IRanges lattice Matrix MatrixGenerics matrixStats nanoarrow nanotime Rcpp RcppCCTZ RcppDate RcppInt64 RcppSpdlog S4Arrays S4Vectors SparseArray spdl tiledb XVector zoo

A DelayedArray backend for TileDB

Introduction | Creating a TileDBArray | Manipulating TileDBArrays | Controlling backend creation | Session information

Rendered fromuserguide.Rmdusingknitr::rmarkdown

Last update: 2020-06-12
Started: 2020-05-14

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Delayed TileDB arrays	chunkdim,TileDBArraySeed-method DelayedArray,TileDBArraySeed-method extract_array,TileDBArraySeed-method extract_sparse_array,TileDBArraySeed-method is_sparse,TileDBArraySeed-method matrixClass,TileDBArray-method path,TileDBArraySeed-method show,TileDBArraySeed-method TileDBArray TileDBArray-class TileDBArraySeed TileDBArraySeed-class TileDBMatrix TileDBMatrix-class type,TileDBArraySeed-method
TileDBArray global options	getTileDBAttr getTileDBCapacity getTileDBCellOrder getTileDBContext getTileDBDimType getTileDBExtent getTileDBPath getTileDBTileOrder setTileDBAttr setTileDBCapacity setTileDBCellOrder setTileDBContext setTileDBDimType setTileDBExtent setTileDBPath setTileDBTileOrder TileDBArray-globals
The 'TileDBArray' package	TileDBArray-pkg
Write arrays to TileDB	coerce,ANY,TileDBArray-method coerce,ANY,TileDBMatrix-method coerce,ANY,TileDBRealizationSink-method coerce,TileDBRealizationSink,DelayedArray-method coerce,TileDBRealizationSink,TileDBArray-method coerce,TileDBRealizationSink,TileDBMatrix-method TileDBRealizationSink TileDBRealizationSink-class type,TileDBRealizationSink-method writeTileDBArray write_block,TileDBRealizationSink-method