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hca

Exploring the Human Cell Atlas Data Coordinating Platform


Bioconductor version: Release (3.18)

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 "4.3") 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")
Accessing Human Cell Atlas Data HTML R Script
Working With Human Cell Atlas Manifests HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews SingleCell, Software
Version 1.10.0
In Bioconductor since BioC 3.13 (R-4.1) (3 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
See More
Suggests LoomExperiment, SummarizedExperiment, SingleCellExperiment, S4Vectors, methods, testthat (>= 3.0.0), knitr, rmarkdown, 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.

Source Package hca_1.10.0.tar.gz
Windows Binary hca_1.10.0.zip (64-bit only)
macOS Binary (x86_64) hca_1.10.0.tgz
macOS Binary (arm64) hca_1.10.0.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