ZarrArray
This is the development version of ZarrArray; for the stable release version, see ZarrArray.
Bring Zarr datasets in R as DelayedArray objects
Bioconductor version: Development (3.24)
The ZarrArray package leverages the Rarr package to bring Zarr datasets in R as DelayedArray objects. The main class in the package is the ZarrArray class. A ZarrArray object is an array-like object that represents a Zarr dataset in R. ZarrArray objects are DelayedArray derivatives and therefore support all operations (delayed or block-processed) supported by DelayedArray objects.
Author: Hervé Pagès [aut, cre]
, Mike Smith [aut]
, Hugo Gruson [aut]
, Artür Manukyan [aut]
, Levi Waldron [fnd]
Maintainer: Hervé Pagès <hpages.on.github at gmail.com>
citation("ZarrArray")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("ZarrArray")
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("ZarrArray")| ZarrArray overview | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, DataRepresentation, Infrastructure, Software |
| Version | 1.1.5 |
| In Bioconductor since | BioC 3.23 (R-4.6) (< 6 months) |
| License | Artistic-2.0 |
| Depends | R (>= 3.4), methods, SparseArray, DelayedArray(>= 0.39.4) |
| Imports | stats, tools, BiocGenerics(>= 0.59.11), S4Vectors, IRanges, S4Arrays, Rarr(>= 2.1.9) |
| System Requirements | |
| URL | https://bioconductor.org/packages/ZarrArray |
| Bug Reports | https://github.com/Bioconductor/ZarrArray/issues |
See More
| Suggests | paws.storage, HDF5Array, testthat, anndataR, knitr, rmarkdown, BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | ImageArray |
| Suggests Me | DelayedArray, Rarr |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ZarrArray_1.1.5.tar.gz |
| Windows Binary (x86_64) | ZarrArray_1.1.3.zip |
| macOS Binary (big-sur-x86_64) | ZarrArray_1.1.5.tgz |
| macOS Binary (sonoma-arm64) | ZarrArray_1.1.5.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ZarrArray |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ZarrArray |
| Bioc Package Browser | https://code.bioconductor.org/browse/ZarrArray/ |
| Package Short Url | https://bioconductor.org/packages/ZarrArray/ |
| Package Downloads Report | Download Stats |