zellkonverter
Conversion Between scRNA-seq Objects
Bioconductor version: 3.24 · Package version: 1.23.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("zellkonverter")Details
| Maintainer | Luke Zappia <luke@lazappi.id.au> |
| Author | Luke Zappia [aut, cre] (ORCID: <https://orcid.org/0000-0001-7744-8565>, github: lazappi), Aaron Lun [aut] (ORCID: <https://orcid.org/0000-0002-3564-4813>, github: LTLA), Jack Kamm [ctb] (ORCID: <https://orcid.org/0000-0003-2412-756X>, github: jackkamm), Robrecht Cannoodt [ctb] (ORCID: <https://orcid.org/0000-0003-3641-729X>, github: rcannood), Gabriel Hoffman [ctb] (ORCID: <https://orcid.org/0000-0002-0957-0224>, github: GabrielHoffman), Marek Cmero [ctb] (ORCID: <https://orcid.org/0000-0001-7783-5530>, github: mcmero) |
| License | MIT + file LICENSE |
| URL | https://github.com/theislab/zellkonverter |
| Bug Reports | https://github.com/theislab/zellkonverter/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | DataImport, DataRepresentation, SingleCell, Software |
| Package Short Url | https://bioconductor.org/packages/zellkonverter/ |
Citation
From within R, enter citation("zellkonverter"):
Luke Zappia, Aaron Lun. zellkonverter: Conversion Between scRNA-seq Objects. doi:10.18129/B9.bioc.zellkonverter, R package version 1.23.0, https://bioconductor.org/packages/zellkonverter.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | zellkonverter_1.23.0.tar.gz |
| macOS binary (arm64) | zellkonverter_1.23.0.tgz |
| macOS binary (x86_64) | zellkonverter_1.23.0.tgz |
Dependencies
Imports: basilisk, cli, DelayedArray, Matrix, methods, reticulate, S4Vectors, SingleCellExperiment (>= 1.11.6), SparseArray, SummarizedExperiment, utils
Suggests: anndata, BiocFileCache, BiocStyle, covr, HDF5Array, knitr, pkgload, rhdf5 (>= 2.45.1), rmarkdown, scRNAseq, SpatialExperiment, spelling, testthat, withr
Reverse dependencies
Depends On Me (1): scATAC.Explorer
Imports Me (6): BatChef, BgeeDB, cellNexus, DOtools, singleCellTK, velociraptor
Suggests Me (7): cellxgenedp, GloScope, HCATonsilData, HDF5Array, MultiAssaySpatialExperiment, nemoR, SpaceMarkers