zellkonverter
This is the development version of zellkonverter; for the stable release version, see zellkonverter.
Conversion Between scRNA-seq Objects
Bioconductor version: Development (3.20)
Provides methods to convert between Python AnnData objects and SingleCellExperiment objects. These are primarily intended for use by downstream Bioconductor packages that wrap Python methods for single-cell data analysis. It also includes functions to read and write H5AD files used for saving AnnData objects to disk.
Author: Luke Zappia [aut, cre] , Aaron Lun [aut] , Jack Kamm [ctb] , Robrecht Cannoodt [ctb] (
Maintainer: Luke Zappia <luke at lazappi.id.au>
citation("zellkonverter")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("zellkonverter")
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("zellkonverter")
Converting to/from AnnData to SingleCellExperiments | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | DataImport, DataRepresentation, SingleCell, Software |
Version | 1.15.3 |
In Bioconductor since | BioC 3.12 (R-4.0) (4 years) |
License | MIT + file LICENSE |
Depends | |
Imports | basilisk, cli, DelayedArray, Matrix, methods, reticulate, S4Vectors, SingleCellExperiment(>= 1.11.6), SummarizedExperiment, utils |
System Requirements | |
URL | https://github.com/theislab/zellkonverter |
Bug Reports | https://github.com/theislab/zellkonverter/issues |
See More
Suggests | anndata, BiocFileCache, BiocStyle, covr, HDF5Array, knitr, pkgload, rhdf5(>= 2.45.1), rmarkdown, scRNAseq, spelling, testthat, withr |
Linking To | |
Enhances | |
Depends On Me | OSCA.intro |
Imports Me | singleCellTK, velociraptor |
Suggests Me | cellxgenedp, CuratedAtlasQueryR, GloScope, HDF5Array, HCATonsilData |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | zellkonverter_1.15.3.tar.gz |
Windows Binary | zellkonverter_1.15.3.zip (64-bit only) |
macOS Binary (x86_64) | zellkonverter_1.15.3.tgz |
macOS Binary (arm64) | zellkonverter_1.15.3.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/zellkonverter |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/zellkonverter |
Bioc Package Browser | https://code.bioconductor.org/browse/zellkonverter/ |
Package Short Url | https://bioconductor.org/packages/zellkonverter/ |
Package Downloads Report | Download Stats |