Package: HubPub 1.21.1

Kayla Interdonato

HubPub: Utilities to create and use Bioconductor Hubs

HubPub provides users with functionality to help with the Bioconductor Hub structures. The package provides the ability to create a skeleton of a Hub style package that the user can then populate with the necessary information. There are also functions to help add resources to the Hub package metadata files as well as publish data to the Bioconductor S3 bucket.

Authors:Kayla Interdonato [aut, cre], Martin Morgan [aut], Lori Shepherd [ctb]

HubPub_1.21.1.tar.gz
HubPub_1.21.1.zip(r-4.7)HubPub_1.21.1.zip(r-4.6)HubPub_1.21.1.zip(r-4.5)
HubPub_1.21.1.tgz(r-4.6-any)HubPub_1.21.1.tgz(r-4.5-any)
HubPub_1.21.1.tar.gz(r-4.7-any)HubPub_1.21.1.tar.gz(r-4.6-any)
HubPub_1.21.1.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
HubPub/json (API)

# Install 'HubPub' in R:
install.packages('HubPub', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/bioconductor/hubpub/issues

On BioConductor:HubPub-1.21.1(bioc 3.24)HubPub-1.20.0(bioc 3.23)

dataimportinfrastructuresoftwarethirdpartyclientbioconductor-package

5.03 score 3 stars 6 scripts 4 exports 67 dependencies

Last updated from:9d1fe289b1. Checks:1 WARNING, 5 NOTE, 2 OK, 2 ERROR. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING158
linux-devel-x86_64NOTE319
source / vignettesOK254
linux-release-x86_64NOTE246
macos-release-arm64NOTE174
macos-oldrel-arm64ERROR127
windows-develNOTE190
windows-releaseNOTE189
windows-oldrelERROR143
wasm-releaseOK156

Exports:add_resourcecreate_pkghub_metadatapublish_resource

Dependencies:askpassavailableaws.s3aws.signaturebase64encBiocManagerbiocthiscachemclicliprclisymbolscrayoncredentialscurldescdigestdplyrfastmapfsgenericsgertgitcredsgluehttrhttr2inijaneaustenrjsonlitelatticelifecyclemagrittrMatrixmemoisemimeopensslpillarpkgconfigpurrrR.cacheR.methodsS3R.ooR.utilsR6rappdirsRcpprlangrprojrootrstudioapiSnowballCstringdiststringistringrstylersystibbletidyselecttidytexttokenizersusethisutf8vctrswhiskerwithrxml2yamlyesnozip

Creating A Hub Package: ExperimentHub or AnnotationHub
Overview | Setting up a package to use a Hub | New Hub package | Notify Bioconductor team member | Building the package | inst/extdata/ | inst/scripts/ | vignettes/ | R/ | man/ | DESCRIPTION / NAMESPACE | Data objects | Confirm Valid Metadata | Package review | Additional resources to existing Hub package | Converting a non AnnotationHub annotation package or non ExperimentHub | Bug fixes | Update the resource | Update the metadata | Remove resources | Versioning | Visibility | Storage of Data Files | Hosting Data on a Publicly Accessible Site | Uploading Data to Microsoft Azure Genomic Data Lake | R Interface with R package | Command Line via AWS S3 CLI | Utilizing the Bioconductor Docker container | Validating | Example metadata.csv file and more information
Rendered fromCreateAHubPackage.Rmdusingknitr::rmarkdown

Last update: 2026-05-20
Started: 2021-07-06

HubPub: Help with publication of Hub packages
Introduction | Installation | HubPub | Creating a Hub styled package | Adding a resource to the metadata file | Publishing the resource to AWS S3 | Session Information
Rendered fromHubPub.Rmdusingknitr::rmarkdown

Last update: 2021-07-06
Started: 2021-03-22