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Exploring the Human Cell Atlas Data Coordinating Platform

Bioconductor version: Release (3.19)

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>

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


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

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

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


biocViews SingleCell, Software
Version 1.12.0
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
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Suggests LoomExperiment, SummarizedExperiment, SingleCellExperiment, S4Vectors, methods, testthat (>= 3.0.0), knitr, rmarkdown, BiocStyle
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Follow Installation instructions to use this package in your R session.

Source Package hca_1.12.0.tar.gz
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macOS Binary (x86_64) hca_1.12.0.tgz
macOS Binary (arm64) hca_1.12.0.tgz
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