- recipe bioconductor-rgreat
GREAT Analysis - Functional Enrichment on Genomic Regions
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/rGREAT.html
- License:
MIT + file LICENSE
- Recipe:
- Links:
biotools: rgreat, doi: 10.1038/nmeth.3252
GREAT (Genomic Regions Enrichment of Annotations Tool) is a type of functional enrichment analysis directly performed on genomic regions. This package implements the GREAT algorithm (the local GREAT analysis), also it supports directly interacting with the GREAT web service (the online GREAT analysis). Both analysis can be viewed by a Shiny application. rGREAT by default supports more than 600 organisms and a large number of gene set collections, as well as self-provided gene sets and organisms from users. Additionally, it implements a general method for dealing with background regions.
- package bioconductor-rgreat¶
-
- Versions:
2.0.0-1
,2.0.0-0
,1.26.0-0
,1.24.0-0
,1.22.0-1
,1.22.0-0
,1.20.0-0
,1.18.0-0
,1.16.0-1
,2.0.0-1
,2.0.0-0
,1.26.0-0
,1.24.0-0
,1.22.0-1
,1.22.0-0
,1.20.0-0
,1.18.0-0
,1.16.0-1
,1.14.0-0
,1.12.1-0
,1.11.1-0
,1.8.0-0
- Depends:
bioconductor-annotationdbi
>=1.60.0,<1.61.0
bioconductor-genomeinfodb
>=1.34.0,<1.35.0
bioconductor-genomicfeatures
>=1.50.0,<1.51.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-go.db
>=3.16.0,<3.17.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-org.hs.eg.db
>=3.16.0,<3.17.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
bioconductor-txdb.hsapiens.ucsc.hg19.knowngene
>=3.2.0,<3.3.0
bioconductor-txdb.hsapiens.ucsc.hg38.knowngene
>=3.16.0,<3.17.0
libblas
>=3.9.0,<4.0a0
libgcc-ng
>=12
liblapack
>=3.9.0,<4.0a0
libstdcxx-ng
>=12
r-base
>=4.2,<4.3.0a0
r-getoptlong
>=0.0.9
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-rgreat
and update with:
conda update bioconductor-rgreat
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-rgreat:<tag>
(see bioconductor-rgreat/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-rgreat/README.html)