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Bioconductor - xenLite

xenLite

This is the released version of xenLite; for the devel version, see xenLite.

Simple classes and methods for managing Xenium datasets

Bioconductor version: Release (3.21)

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.

Author: Vincent Carey [aut, cre] ORCID: 0000-0003-4046-0063

Maintainer: Vincent Carey <stvjc at channing.harvard.edu>

Citation (from within R, enter citation("xenLite")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("xenLite")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("xenLite")
xenLite: exploration of a class for Xenium demonstration data HTML R Script Reference Manual PDF Details biocViews Infrastructure, Software Version 1.2.1 In Bioconductor since BioC 3.20 (R-4.4) (0.5 years) License Artistic-2.0 Depends R (>= 4.1) Imports SpatialExperiment, BiocFileCache, Matrix, S4Vectors, SummarizedExperiment, methods, utils, EBImage, shiny, HDF5Array, arrow, ggplot2, SingleCellExperiment, TENxIO, dplyr, graphics, stats System Requirements URL https://github.com/vjcitn/xenLite Bug Reports https://github.com/vjcitn/xenLite/issues See More Package Archives

Follow Installation instructions to use this package in your R session.

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