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Showing content from https://www.bioconductor.org/packages/devel/bioc/html/../../data/experiment/html/HCATonsilData.html below:

Bioconductor - HCATonsilData (development version)

HCATonsilData

This is the development version of HCATonsilData; for the stable release version, see HCATonsilData.

Provide programmatic access to the tonsil cell atlas datasets

Bioconductor version: Development (3.22)

This package provides access to the scRNA-seq, scATAC-seq, multiome, CITE-seq and spatial transcriptomics (Visium) data generated by the tonsil cell atlas in the context of the Human Cell Atlas (HCA). The data is provided via the Bioconductor project in the form of SingleCellExperiments. Additionally, information on the whole compendium of identified cell types is provided in form of a glossary.

Author: Ramon Massoni-Badosa [aut, cre] ORCID: 0000-0001-7115-8145 , Federico Marini [aut] ORCID: 0000-0003-3252-7758 , Alan O'Callaghan [aut], Helena L. Crowell [aut] ORCID: 0000-0002-4801-1767

Maintainer: Ramon Massoni-Badosa <ramonmassoni at gmail.com>

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

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


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("HCATonsilData")

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("HCATonsilData")
Details biocViews ExperimentData, ExperimentHub, ExpressionData, RNASeqData, SingleCellData, SpatialData Version 1.7.0 License MIT + file LICENSE Depends R (>= 4.3.0) Imports ExperimentHub, SingleCellExperiment, SpatialExperiment, HDF5Array, SummarizedExperiment, S4Vectors, htmltools, rmarkdown, base64enc, utils System Requirements URL https://github.com/massonix/HCATonsilData Bug Reports https://github.com/massonix/HCATonsilData/issues See More Suggests knitr, ggplot2, testthat (>= 3.0.0), scater, Seurat, Signac, zellkonverter, iSEE, ggspavis, kableExtra, BiocStyle Linking To Enhances Depends On Me Imports Me Suggests Me Links To Me Build Report Build Report Package Archives

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

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