xenLite
Simple classes and methods for managing Xenium datasets
Bioconductor version: 3.23 · Package version: 1.6.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
Define a relatively light class for managing Xenium data using Bioconductor. Address use of parquet for coordinates, SpatialExperiment for assay and sample data. Address serialization and use of cloud storage.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("xenLite")Details
| Maintainer | Vincent Carey <stvjc@channing.harvard.edu> |
| Author | Vincent Carey [aut, cre] (ORCID: <https://orcid.org/0000-0003-4046-0063>) |
| License | Artistic-2.0 |
| URL | https://github.com/vjcitn/xenLite |
| Bug Reports | https://github.com/vjcitn/xenLite/issues |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Infrastructure, Software |
| Package Short Url | https://bioconductor.org/packages/xenLite/ |
Citation
From within R, enter citation("xenLite"):
Vincent Carey. xenLite: Simple classes and methods for managing Xenium datasets. doi:10.18129/B9.bioc.xenLite, R package version 1.6.0, https://bioconductor.org/packages/xenLite.
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 | xenLite_1.6.0.tar.gz |
| Windows binary (x86_64) | xenLite_1.6.0.zip |
| macOS binary (arm64) | xenLite_1.6.0.tgz |
| macOS binary (x86_64) | xenLite_1.6.0.tgz |
Dependencies
Depends: R (>= 4.1)
Imports: SpatialExperiment, BiocFileCache, Matrix, S4Vectors, SummarizedExperiment, methods, utils, EBImage, shiny, HDF5Array, arrow, ggplot2, SingleCellExperiment, TENxIO, dplyr, graphics, stats
Suggests: knitr, testthat, BiocStyle, yesno, terra, SpatialFeatureExperiment, SFEData, tiff