-
recipe
bioconductor-smite¶ This package builds on the Epimods framework which facilitates finding weighted subnetworks (“modules”) on Illumina Infinium 27k arrays using the SpinGlass algorithm, as implemented in the iGraph package. We have created a class of gene centric annotations associated with p-values and effect sizes and scores from any researchers prior statistical results to find functional modules.
- Homepage
- License
GPL (>=2)
- Recipe
- Links
biotools: smite, doi: 10.1186/s12859-017-1477-3
-
package
bioconductor-smite¶ 
- Versions
1.10.0-0, 1.8.0-0, 1.6.0-0
- Depends bioconductor-annotationdbi
>=1.44.0,<1.45.0
- Depends bioconductor-biobase
>=2.42.0,<2.43.0
- Depends bioconductor-bionet
>=1.42.0,<1.43.0
- Depends bioconductor-genelendatabase
>=1.18.0,<1.19.0
- Depends bioconductor-genomicranges
>=1.34.0,<1.35.0
- Depends bioconductor-goseq
>=1.34.0,<1.35.0
- Depends bioconductor-iranges
>=2.16.0,<2.17.0
- Depends bioconductor-kegg.db
>=3.2.0,<3.3.0
- Depends bioconductor-org.hs.eg.db
>=3.7.0,<3.8.0
- Depends bioconductor-reactome.db
>=1.66.0,<1.67.0
- Depends bioconductor-s4vectors
>=0.20.0,<0.21.0
- Depends r-base
>=3.5.1,<3.5.2.0a0
- Depends r-ggplot2
- Depends r-hmisc
- Depends r-igraph
- Depends r-plyr
- Depends r-scales
- Requirements
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-smite
and update with:
conda update bioconductor-smite
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-smite:<tag>
(see bioconductor-smite/tags for valid values for
<tag>)
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-smite/README.html)