- recipe bioconductor-vulcan
VirtUaL ChIP-Seq data Analysis using Networks
- Homepage:
https://bioconductor.org/packages/3.14/bioc/html/vulcan.html
- License:
LGPL-3
- Recipe:
Vulcan (VirtUaL ChIP-Seq Analysis through Networks) is a package that interrogates gene regulatory networks to infer cofactors significantly enriched in a differential binding signature coming from ChIP-Seq data. In order to do so, our package combines strategies from different BioConductor packages: DESeq for data normalization, ChIPpeakAnno and DiffBind for annotation and definition of ChIP-Seq genomic peaks, csaw to define optimal peak width and viper for applying a regulatory network over a differential binding signature.
- package bioconductor-vulcan¶
-
- Versions:
1.16.0-0
,1.14.0-0
,1.10.0-0
,1.8.0-0
,1.6.0-1
,1.4.0-0
- Depends:
bioconductor-biobase
>=2.54.0,<2.55.0
bioconductor-chippeakanno
>=3.28.0,<3.29.0
bioconductor-csaw
>=1.28.0,<1.29.0
bioconductor-deseq2
>=1.34.0,<1.35.0
bioconductor-diffbind
>=3.4.0,<3.5.0
bioconductor-genomicranges
>=1.46.0,<1.47.0
bioconductor-s4vectors
>=0.32.0,<0.33.0
bioconductor-txdb.hsapiens.ucsc.hg19.knowngene
>=3.2.0,<3.3.0
bioconductor-viper
>=1.28.0,<1.29.0
r-base
>=4.1,<4.2.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-vulcan
and update with:
conda update bioconductor-vulcan
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-vulcan:<tag>
(see bioconductor-vulcan/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-vulcan/README.html)