- recipe bioconductor-smite
Significance-based Modules Integrating the Transcriptome and Epigenome
- Homepage:
- License:
GPL (>=2)
- Recipe:
- Links:
biotools: smite, doi: 10.1186/s12859-017-1477-3
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.
- package bioconductor-smite¶
-
- Versions:
1.26.0-0
,1.22.0-0
,1.20.0-0
,1.18.0-1
,1.18.0-0
,1.16.0-0
,1.14.0-1
,1.12.0-1
,1.10.0-0
,1.26.0-0
,1.22.0-0
,1.20.0-0
,1.18.0-1
,1.18.0-0
,1.16.0-0
,1.14.0-1
,1.12.0-1
,1.10.0-0
,1.8.0-0
,1.6.0-0
- Depends:
bioconductor-annotationdbi
>=1.60.0,<1.61.0
bioconductor-biobase
>=2.58.0,<2.59.0
bioconductor-bionet
>=1.58.0,<1.59.0
bioconductor-genelendatabase
>=1.34.0,<1.35.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-goseq
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-keggrest
>=1.38.0,<1.39.0
bioconductor-org.hs.eg.db
>=3.16.0,<3.17.0
bioconductor-reactome.db
>=1.82.0,<1.83.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see 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>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-smite/README.html)