Package: XeniumIO 0.99.8

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]

XeniumIO_0.99.8.tar.gz
XeniumIO_0.99.8.zip(r-4.5)XeniumIO_0.99.8.zip(r-4.4)
XeniumIO_0.99.8.tgz(r-4.5-any)XeniumIO_0.99.8.tgz(r-4.4-any)
XeniumIO_0.99.8.tar.gz(r-4.5-noble)XeniumIO_0.99.8.tar.gz(r-4.4-noble)
XeniumIO_0.99.8.tgz(r-4.4-emscripten)
XeniumIO.pdf |XeniumIO.html✨
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-0.99.8(bioc 3.21)

software infrastructure dataimport singlecell spatial u24ca289073

4.40 score 2 scripts 5 downloads 3 exports 85 dependencies

Last updated 10 days agofrom:5e97a63a2c. Checks:6 OK. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Feb 22 2025
R-4.5-win	OK	Feb 22 2025
R-4.5-mac	OK	Feb 22 2025
R-4.5-linux	OK	Feb 22 2025
R-4.4-win	OK	Feb 22 2025
R-4.4-mac	OK	Feb 22 2025

Exports:import TENxXenium XeniumFile

Dependencies:abind askpass Biobase BiocBaseUtils BiocFileCache BiocGenerics BiocIO bit bit64 bitops blob cachem cli clipr cpp11 crayon curl DBI dbplyr DelayedArray dplyr fansi fastmap filelock generics GenomeInfoDb GenomeInfoDbData GenomicRanges glue h5mread HDF5Array hms httr IRanges jsonlite lattice lifecycle magick magrittr Matrix MatrixGenerics matrixStats memoise mime openssl pillar pkgconfig plogr prettyunits progress purrr R.methodsS3 R.oo R.utils R6 Rcpp RCurl readr rhdf5 rhdf5filters Rhdf5lib rjson rlang RSQLite S4Arrays S4Vectors SingleCellExperiment SparseArray SpatialExperiment stringi stringr SummarizedExperiment sys TENxIO tibble tidyr tidyselect tzdb UCSC.utils utf8 vctrs VisiumIO vroom withr XVector

XeniumIO: Import 10X Genomics Xenium Analyzer Data

Marcel Ramos

Rendered fromXeniumIO.Rmdusingknitr::rmarkdownon Feb 22 2025.

Last update: 2025-02-11
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