HCAData

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9

Accessing The Datasets Of The Human Cell Atlas in R/Bioconductor

Bioconductor version: Development (3.24)

This package allows a direct access to the dataset generated by the Human Cell Atlas project for further processing in R and Bioconductor, in the comfortable format of SingleCellExperiment objects (available in other formats here: http://preview.data.humancellatlas.org/).

Author: Federico Marini [aut, cre] ORCID: 0000-0003-3252-7758

Maintainer: Federico Marini <marinif at uni-mainz.de>

Citation (from within R, enter citation("HCAData")):

Federico Marini. HCAData: Accessing The Datasets Of The Human Cell Atlas in R/Bioconductor. doi:10.18129/B9.bioc.HCAData, R package version 1.29.0, https://bioconductor.org/packages/HCAData.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("HCAData")

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("HCAData")

Accessing the Human Cell Atlas datasets	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ExperimentData, ExperimentHub, ExpressionData, RNASeqData, SingleCellData
Version	1.29.0
In Bioconductor since	BioC 3.9 (R-3.6) (7.5 years)
License	MIT + file LICENSE
Depends	R (>= 3.6), SingleCellExperiment
Imports	ExperimentHub, AnnotationHub, HDF5Array, utils
System Requirements
URL	https://github.com/federicomarini/HCAData

Suggests	knitr, rmarkdown, BiocStyle, scran (>= 1.11.4), BiocSingular, scater, scuttle, Rtsne, igraph, iSEE, testthat
Linking To
Enhances
Depends On Me	OSCA.workflows
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	HCAData_1.29.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/HCAData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/HCAData
Package Short Url	https://bioconductor.org/packages/HCAData/
Package Downloads Report	Download Stats