anndataR
This is the development version of anndataR; to use it, please install the devel version of Bioconductor.
AnnData interoperability in R
Bioconductor version: Development (3.22)
Bring the power and flexibility of AnnData to the R ecosystem, allowing you to effortlessly manipulate and analyse your single-cell data. This package lets you work with backed h5ad and zarr files, directly access various slots (e.g. X, obs, var), or convert the data into SingleCellExperiment and Seurat objects.
Author: Robrecht Cannoodt [aut, cre] (ORCID:
, github: rcannood), Luke Zappia [aut] (ORCID:
, github: lazappi), Martin Morgan [aut] (ORCID:
, github: mtmorgan), Louise Deconinck [aut] (ORCID:
, github: LouiseDck), Danila Bredikhin [ctb] (ORCID:
, github: gtca), Isaac Virshup [ctb] (ORCID:
, github: ivirshup), Brian Schilder [ctb] (ORCID:
, github: bschilder), Chananchida Sang-aram [ctb] (ORCID:
, github: csangara), Data Intuitive [fnd, cph], Chan Zuckerberg Initiative [fnd], scverse consortium [spn]
Maintainer: Robrecht Cannoodt <robrecht at data-intuitive.com>
citation("anndataR")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("anndataR")
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("anndataR")| Python integration with anndataR | HTML | R Script |
| Read/write Seurat objects using anndataR | HTML | R Script |
| Read/write SingleCellExperiment objects using anndataR | HTML | R Script |
| Using anndataR to read and convert | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DataImport, DataRepresentation, SingleCell, Software |
| Version | 0.99.6 |
| In Bioconductor since | BioC 3.22 (R-4.5) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.5.0) |
| Imports | cli, lifecycle, Matrix, methods, purrr, R6 (>= 2.4.0), reticulate (>= 1.41.1), rlang, stats |
| System Requirements | |
| URL | https://anndatar.data-intuitive.com https://github.com/scverse/anndataR |
| Bug Reports | https://github.com/scverse/anndataR/issues |
See More
| Suggests | BiocFileCache, BiocStyle, knitr, processx, rhdf5(>= 2.52.1), rmarkdown, S4Vectors, Seurat, SeuratObject, SingleCellExperiment, spelling, SummarizedExperiment, testthat (>= 3.0.0), vctrs, withr, yaml |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | anndataR_0.99.6.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | anndataR_0.99.6.tgz |
| macOS Binary (arm64) | anndataR_0.99.6.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/anndataR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/anndataR |
| Bioc Package Browser | https://code.bioconductor.org/browse/anndataR/ |
| Package Short Url | https://bioconductor.org/packages/anndataR/ |
| Package Downloads Report | Download Stats |