- recipe bioconductor-cageminer
Candidate Gene Miner
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/cageminer.html
- License:
GPL-3
- Recipe:
This package aims to integrate GWAS-derived SNPs and coexpression networks to mine candidate genes associated with a particular phenotype. For that, users must define a set of guide genes, which are known genes involved in the studied phenotype. Additionally, the mined candidates can be given a score that favor candidates that are hubs and/or transcription factors. The scores can then be used to rank and select the top n most promising genes for downstream experiments.
- package bioconductor-cageminer¶
-
- Versions:
1.4.0-0
,1.0.0-0
- Depends:
bioconductor-bionero
>=1.6.0,<1.7.0
bioconductor-genomeinfodb
>=1.34.0,<1.35.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-ggbio
>=1.46.0,<1.47.0
bioconductor-iranges
>=2.32.0,<2.33.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-cageminer
and update with:
conda update bioconductor-cageminer
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-cageminer:<tag>
(see bioconductor-cageminer/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-cageminer/README.html)