Package: zellkonverter 1.17.0
zellkonverter: Conversion Between scRNA-seq Objects
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.
Authors:
zellkonverter_1.17.0.tar.gz
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zellkonverter.pdf |zellkonverter.html✨
zellkonverter/json (API)
NEWS
| # Install 'zellkonverter' in R: |
| install.packages('zellkonverter', repos = c('https://lazappi.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/theislab/zellkonverter/issues
On BioConductor:zellkonverter-1.15.4(bioc 3.21)zellkonverter-1.16.0(bioc 3.20)
singlecelldataimportdatarepresentationbioconductorconversionscrna-seq
Last updated 4 days agofrom:5381a5a319. Checks:OK: 1 NOTE: 5 ERROR: 1. Indexed: no.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 21 2024 |
| R-4.5-win | NOTE | Nov 21 2024 |
| R-4.5-linux | NOTE | Nov 21 2024 |
| R-4.4-win | NOTE | Nov 21 2024 |
| R-4.4-mac | NOTE | Nov 21 2024 |
| R-4.3-win | NOTE | Nov 21 2024 |
| R-4.3-mac | ERROR | Nov 21 2024 |
Exports:.AnnDataVersionsAnnData2SCEAnnDataDependenciesreadH5ADSCE2AnnDatasetZellkonverterVerbosewriteH5ADzellkonverterAnnDataEnv
Dependencies:abindaskpassbasiliskbasilisk.utilsBiobaseBiocGenericsclicrayoncurlDelayedArraydir.expiryfilelockgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesherehttrIRangesjsonlitelatticeMatrixMatrixGenericsmatrixStatsmimeopensslpngR6rappdirsRcppRcppTOMLreticulaterlangrprojrootS4ArraysS4VectorsSingleCellExperimentSparseArraySummarizedExperimentsysUCSC.utilswithrXVectorzlibbioc
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| zellkonverter: Conversion Between scRNA-seq Objects | zellkonverter-package zellkonverter |
| Convert between AnnData and SingleCellExperiment | AnnData-Conversion AnnData2SCE SCE2AnnData |
| AnnData environment | .AnnDataVersions AnnData-Environment AnnDataDependencies zellkonverterAnnDataEnv |
| Expect SCE | expectSCE |
| Convert between Python and R objects | py_to_r.numpy.ndarray r-py-conversion |
| Read H5AD | readH5AD |
| Set zellkonverter verbose | setZellkonverterVerbose |
| Validate H5AD SCE | validateH5ADSCE |
| Write H5AD | writeH5AD |
