recipe bioconductor-annotationhub

This package provides a client for the Bioconductor AnnotationHub web resource. The AnnotationHub web resource provides a central location where genomic files (e.g., VCF, bed, wig) and other resources from standard locations (e.g., UCSC, Ensembl) can be discovered. The resource includes metadata about each resource, e.g., a textual description, tags, and date of modification. The client creates and manages a local cache of files retrieved by the user, helping with quick and reproducible access.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/AnnotationHub.html

License

Artistic-2.0

Recipe

/bioconductor-annotationhub/meta.yaml

Links

biotools: annotationhub, doi: 10.1038/nmeth.3252

package bioconductor-annotationhub

Versions

2.14.5-0, 2.14.2-0, 2.12.1-0, 2.10.1-0, 2.10.0-0, 2.8.2-0, 2.6.0-0

Depends

• bioconductor-annotationdbi >=1.44.0,<1.45.0

• bioconductor-biocgenerics >=0.28.0,<0.29.0

• bioconductor-interactivedisplaybase >=1.20.0,<1.21.0

• bioconductor-s4vectors >=0.20.0,<0.21.0

• r-base >=3.5.1,<3.5.2.0a0

• r-biocmanager

• r-curl

• r-httr

• r-rsqlite

• r-yaml

Required By

• bioconductor-hipathia

• bioconductor-metagxovarian

• bioconductor-experimenthub

• bioconductor-curatedmetagenomicdata

• bioconductor-curatedtcgadata

• bioconductor-grasp2db

• bioconductor-tenxpbmcdata

• bioconductor-dmrseq

• bioconductor-sesamedata

• bioconductor-refnet

• bioconductor-metagxpancreas

• bioconductor-gwascat

• bioconductor-pwomics

• bioconductor-eupathdb

• bioconductor-alternativesplicingevents.hg19

• bioconductor-psichomics

• bioconductor-genomicscores

• bioconductor-ularcirc

• r-basejump

• bioconductor-annotationhubdata

• bioconductor-hmp16sdata

• bioconductor-alpinedata

• bioconductor-metagxbreast

• bioconductor-restfulse

• bioconductor-alternativesplicingevents.hg38

• bioconductor-allenpvc

• bioconductor-annotatr

• bioconductor-gseabenchmarker

• bioconductor-mcsurvdata

• bioconductor-pathwaysplice

• bioconductor-tenxbraindata

• bioconductor-ipddb

• bioconductor-scmeth

• bioconductor-tsrchitect

• bioconductor-proteomicsannotationhubdata

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-annotationhub

and update with:

conda update bioconductor-annotationhub

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-annotationhub:<tag>

(see bioconductor-annotationhub/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-annotationhub/README.html)