Package: XeniumIO 1.5.0

Marcel Ramos

XeniumIO: Import and represent Xenium data from the 10X Xenium Analyzer

The package allows users to readily import spatial data obtained from the 10X Xenium Analyzer pipeline. Supported formats include 'parquet', 'h5', and 'mtx' files. The package mainly represents data as SpatialExperiment objects.

Authors:Marcel Ramos [aut, cre], Dario Righelli [ctb], Estella Dong [ctb], NCI [fnd]

XeniumIO_1.5.0.tar.gz
XeniumIO_1.5.0.zip(r-4.7)XeniumIO_1.5.0.zip(r-4.6)XeniumIO_1.5.0.zip(r-4.5)
XeniumIO_1.5.0.tgz(r-4.6-any)XeniumIO_1.5.0.tgz(r-4.5-any)
XeniumIO_1.5.0.tar.gz(r-4.7-any)XeniumIO_1.5.0.tar.gz(r-4.6-any)
XeniumIO_1.5.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
XeniumIO/json (API)
NEWS

# Install 'XeniumIO' in R:
install.packages('XeniumIO', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/waldronlab/xeniumio/issues

On BioConductor:XeniumIO-1.5.0(bioc 3.24)XeniumIO-1.4.0(bioc 3.23)

softwareinfrastructuredataimportsinglecellspatialu24ca289073

3.70 score 3 scripts 228 downloads 3 exports 91 dependencies

Last updated from:0e7d3811a3. Checks:1 NOTE, 7 WARNING, 1 ERROR, 1 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE193
linux-devel-x86_64WARNING345
source / vignettesERROR266
linux-release-x86_64WARNING331
macos-release-arm64WARNING156
macos-oldrel-arm64WARNING221
windows-develWARNING235
windows-releaseWARNING267
windows-oldrelWARNING202
wasm-releaseOK157

Exports:importTENxXeniumXeniumFile

Dependencies:abindaskpassBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocIObiocmakebitbit64blobcachemclassclassIntclicliprcpp11crayoncurlDBIdbplyrDelayedArraydir.expirydplyre1071fastmapfilelockgenericsGenomicRangesglueh5mreadHDF5Arrayhmshttr2IRangesjsonliteKernSmoothlatticelifecyclemagickmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoiseopensslpillarpkgconfigprettyunitsprogressproxypurrrR.methodsS3R.ooR.utilsR6rappdirsRcppreadrrhdf5rhdf5filtersRhdf5librjsonrlangRSQLites2S4ArraysS4VectorsSeqinfosfSingleCellExperimentSparseArraySpatialExperimentstringistringrSummarizedExperimentsysTENxIOtibbletidyrtidyselecttzdbunitsutf8vctrsVisiumIOvroomwithrwkXVector

Readme and manuals

Help Manual

Help pageTopics
XeniumIO: Import and represent Xenium data from the 10X Xenium AnalyzerXeniumIO-package XeniumIO
A class to represent Xenium output data.TENxXenium import,TENxXenium,ANY,ANY-method TENxXenium TENxXenium-class
A minimal class to represent Xenium metadata.XeniumFile import,XeniumFile,ANY,ANY-method XeniumFile XeniumFile-class