This package is considered a duplicate. The official version of this package is found at:https://bioc.r-universe.dev/XeniumIO

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✨
DESCRIPTION |NEWS
card.svg |card.png
XeniumIO/json (API)

# Install 'XeniumIO' in R:

install.packages('XeniumIO', repos = c('https://waldronlab.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)

software infrastructure dataimport singlecell spatial u24ca289073

4.70 score 3 scripts 3 exports 91 dependencies

Last updated from:0e7d3811a3. Checks:7 NOTE, 2 OK. Indexed: no.

Target	Result	Time
linux-devel-x86_64	NOTE	276
source / vignettes	OK	247
linux-release-x86_64	NOTE	283
macos-release-arm64	NOTE	231
macos-oldrel-arm64	NOTE	222
windows-devel	NOTE	228
windows-release	NOTE	208
windows-oldrel	NOTE	200
wasm-release	OK	151

Exports:import TENxXenium XeniumFile

Dependencies:abind askpass Biobase BiocBaseUtils BiocFileCache BiocGenerics BiocIO biocmake bit bit64 blob cachem class classInt cli clipr cpp11 crayon curl DBI dbplyr DelayedArray dir.expiry dplyr e1071 fastmap filelock generics GenomicRanges glue h5mread HDF5Array hms httr2 IRanges jsonlite KernSmooth lattice lifecycle magick magrittr MASS Matrix MatrixGenerics matrixStats memoise openssl pillar pkgconfig prettyunits progress proxy purrr R.methodsS3 R.oo R.utils R6 rappdirs Rcpp readr rhdf5 rhdf5filters Rhdf5lib rjson rlang RSQLite s2 S4Arrays S4Vectors Seqinfo sf SingleCellExperiment SparseArray SpatialExperiment stringi stringr SummarizedExperiment sys TENxIO tibble tidyr tidyselect tzdb units utf8 vctrs VisiumIO vroom withr wk XVector

XeniumIO: Import 10X Genomics Xenium Analyzer Data

Rendered fromXeniumIO.Rmdusingknitr::rmarkdown

Last update: 2025-12-11
Started: 2024-10-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
XeniumIO: Import and represent Xenium data from the 10X Xenium Analyzer	XeniumIO-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