hca

Exploring the Human Cell Atlas Data Coordinating Platform

Bioconductor version: Release (3.20)

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>

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

Installation

To install this package, start R (version "4.4") 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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	SingleCell, Software
Version	1.14.0
In Bioconductor since	BioC 3.13 (R-4.1) (3.5 years)
License	MIT + file LICENSE
Depends	R (>= 4.1)
Imports	httr, jsonlite, dplyr, tibble, tidyr, readr, BiocFileCache, tools, utils, digest, shiny, miniUI, DT
System Requirements
URL

Suggests	LoomExperiment, SummarizedExperiment, SingleCellExperiment, S4Vectors, methods, testthat (>= 3.0.0), knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
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Build Report	Build Report

Package Archives

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

Source Package	hca_1.14.0.tar.gz
Windows Binary (x86_64)	hca_1.14.0.zip (64-bit only)
macOS Binary (x86_64)	hca_1.14.0.tgz
macOS Binary (arm64)	hca_1.13.0.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