hca

DOI: 10.18129/B9.bioc.hca  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see hca.

Exploring the Human Cell Atlas Data Coordinating Platform

Bioconductor version: 3.17

This package provides users with the ability to query the Human Cell Atlas data repository for single-cell experiment data. The `projects()`, `files()`, `samples()` and `bundles()` functions retrieve summary information on each of these indexes; corresponding `*_details()` are available for individual entries of each index. File-based resources can be downloaded using `files_download()`. Advanced use of the package allows the user to page through large result sets, and to flexibly query the 'list-of-lists' structure representing query responses.

Author: Maya McDaniel [aut], Martin Morgan [aut, cre] , Kayla Interdonato [ctb]

Maintainer: Martin Morgan <martin.morgan at roswellpark.org>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("hca")

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("hca")

 

HTML	R Script	Accessing Human Cell Atlas Data
HTML	R Script	Working With Human Cell Atlas Manifests
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	SingleCell, Software
Version	1.8.1
In Bioconductor since	BioC 3.13 (R-4.1) (2.5 years)
License	MIT + file LICENSE
Depends	R (>= 4.1)
Imports	httr, jsonlite, dplyr, tibble, tidyr, readr, BiocFileCache, tools, utils, digest, shiny, miniUI, DT
LinkingTo
Suggests	LoomExperiment, SummarizedExperiment, SingleCellExperiment, S4Vectors, methods, testthat (>= 3.0.0), knitr, rmarkdown, BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	hca_1.8.1.tar.gz
Windows Binary	hca_1.8.1.zip (64-bit only)
macOS Binary (x86_64)	hca_1.8.1.tgz
macOS Binary (arm64)	hca_1.8.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/hca
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/hca
Bioc Package Browser	https://code.bioconductor.org/browse/hca/
Package Short Url	https://bioconductor.org/packages/hca/
Package Downloads Report	Download Stats