HuBMAPR

This is the released version of HuBMAPR; for the devel version, see HuBMAPR.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20

Interface to 'HuBMAP'

Bioconductor version: Release (3.23)

'HuBMAP' provides an open, global bio-molecular atlas of the human body at the cellular level. The `datasets()`, `samples()`, `donors()`, `publications()`, and `collections()` functions retrieves the information for each of these entity types. `*_details()` are available for individual entries of each entity type. `*_derived()` are available for retrieving derived datasets or samples for individual entries of each entity type. Data files can be accessed using `bulk_data_transfer()`.

Author: Christine Hou [aut, cre] ORCID: 0009-0001-5350-0629 , Martin Morgan [aut] ORCID: 0000-0002-5874-8148 , Federico Marini [aut] ORCID: 0000-0003-3252-7758

Maintainer: Christine Hou <chris2018hou at gmail.com>

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

Christine Hou, Martin Morgan, Federico Marini. HuBMAPR: Interface to 'HuBMAP'. doi:10.18129/B9.bioc.HuBMAPR, R package version 1.6.2, https://bioconductor.org/packages/HuBMAPR.

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")

BiocManager::install("HuBMAPR")

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("HuBMAPR")

Accessing Human Cell Atlas Data	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DataImport, Infrastructure, SingleCell, Software, Spatial, ThirdPartyClient
Version	1.6.2
In Bioconductor since	BioC 3.20 (R-4.4) (2 years)
License	Artistic-2.0
Depends	R (>= 4.4.0)
Imports	httr2, dplyr, tidyr, tibble, rjsoncons, utils, stringr, whisker, purrr, rlang
System Requirements
URL	https://christinehou11.github.io/HuBMAPR/ https://github.com/christinehou11/HuBMAPR
Bug Reports	https://github.com/christinehou11/HuBMAPR/issues

Suggests	testthat (>= 3.0.0), knitr, ggplot2, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
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	HuBMAPR_1.6.2.tar.gz
Windows Binary (x86_64)	HuBMAPR_1.6.2.zip
macOS Binary (big-sur-x86_64)	HuBMAPR_1.6.2.tgz
macOS Binary (sonoma-arm64)	HuBMAPR_1.6.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/HuBMAPR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/HuBMAPR
Package Short Url	https://bioconductor.org/packages/HuBMAPR/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.23	Source Archive